NAMIC Wiki - User contributions [en]

2012 Summer Project Week

2012-05-18T11:48:04Z

Andinet: /* Device Integration with Slicer and General Image Guided Therapy */

Back to [[Events]]

[[image:PW-MIT2012.png|200px]]

*'''Dates:''' June 18-22, 2012
*'''Location:''' MIT

==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 18
!style="width:18%" |Tuesday, June 19
!style="width:18%" |Wednesday, June 20
!style="width:18%" |Thursday, June 21
!style="width:18%" |Friday, June 22
|-
|
|bgcolor="#dbdbdb"|'''Project Presentations'''
|bgcolor="#6494ec"|'''NA-MIC Update Day'''
|
|bgcolor="#88aaae"|'''IGT Day'''
|bgcolor="#faedb6"|'''Reporting Day'''
|-
|bgcolor="#ffffdd"|'''8:30am'''
|
|bgcolor="#ffffaa"|Breakfast
|bgcolor="#ffffaa"|Breakfast
|bgcolor="#ffffaa"|Breakfast
|bgcolor="#ffffaa"|Breakfast
|-
|bgcolor="#ffffdd"|'''9am-12pm'''
|
|'''9am-10am:''' Slicer4 (Jean-Christophe Fillion-Robin)
'''10-11am''' Slicer4 Breakout (Continued) 
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
 ---------------------------------------- 
'''11-12pm: Breakout Session:''' ) 
[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''9am-12pm: Breakout Session:''' [[2012 Project Week Breakout Session: ITK|ITK]] (Luis Ibanez)
 [[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
 ---------------------------------------- 
'''10am-12pm: Computation Core PIs: closed meeting with Ron:''' 
 Star Room
|'''9am-4pm: Breakout Session:''' [[2012 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
 [[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
 '''10:30am-12pm: Breakout Session:''' 
 [[MIT_Project_Week_Rooms#Star|Star Room]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
 [[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
|-
|bgcolor="#ffffdd"|'''12pm-1pm'''
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch
|bgcolor="#ffffaa"|Lunch boxes; Adjourn by 1:30pm
|-
|bgcolor="#ffffdd"|'''1pm-5:30pm'''
|'''1-1:05pm: Ron Kikinis: Welcome'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
 ---------------------------------------- 
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
 [[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
 ---------------------------------------- 
'''3:30-4:15pm''' Slicer4 Developers Session (Pieper) 
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
 --- 
'''4:15-5:00pm''' Slicer4 Developer Session Continued 
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
 --- 
'''4:15-5:00pm''' Breakout Session: TBD 
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Right)]]
|'''1-3pm: Breakout Session:''' TBD
 [[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
 ---------------------------------------- 
'''3-4pm:''' [[2012_Tutorial_Contest|Tutorial Contest Presentations]]
 [[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
 ---------------------------------------- 
'''4-5pm:''' Breakout Session:TBD
 [[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2012|Tutorial Contest Winner Announcement]]
 [[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]

|'''1-4pm: Breakout Session:''' 
 [[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|
|-
|bgcolor="#ffffdd"|'''5:30pm'''
|bgcolor="#f0e68b"|Adjourn for the day
|bgcolor="#f0e68b"|Adjourn for the day
|bgcolor="#f0e68b"|Adjourn for the day
|bgcolor="#f0e68b"|Adjourn for the day
|
|}

==Projects==

This is where the list of projects goes...

Please use [http://wiki.na-mic.org/Wiki/index.php/Project_Week/Template THIS TEMPLATE] to create project pages for this event.

==='''Neurosurgery, Brain and Spine, Traumatic Brain Injury'''===

# [[2012_Summer_Project_Week:Early_Dementia_Diagnostic |Early Dementia Diagnostic Tools]] (Marcel Koek, Sonia Pujol)
# Intraoperative White Matter Tract Detection Module (Lauren O'Donnell, Isaiah Norton)
# [[Semiautomatic longitudinal segmentation of MR volumes in traumatic brain injury]] (Andrei Irimia, Danielle Pace, Micah Chambers, Stephen Aylward)
# [[2012_Summer_Project_Week:Radnostics |Spine Segmentation & Osteoporosis Detection In CT Imaging Studies]] (Anthony Blumfield)
# [[2012_Summer_Project_Week:4D_Segmentation_TBI|4D Segmentation of longitudinal MRI of TBI patients]] (Bo Wang, Marcel Prastawa, Andrei Irimia, Micah Chambers, Jack van Horn, Guido Gerig)

==='''Radiation Therapy'''===

#Dose Calculation for Interstitial Brachytherapy (Tina Kapur, Greg Sharp)
#[[2012_Summer_Project_Week:Overlapping_structures|Overlapping structures]] (Greg Sharp, Steve Pieper)
#[[2012_Summer_Project_Week:Atlas_based_segmentation_for_head_and_neck|Atlas-based segmentation for head and neck]] (Greg Sharp, Nadya Shusharina, James Shackleford, Polina Golland)
#[[2012_Summer_Project_Week:SlicerRT|Radiotherapy extensions for Slicer 4]] (Andras Lasso, Csaba Pinter, Kevin Wang)

==='''Huntington's Disease'''===
# [[2012_Summer_Project_Week:DTIPrep|DTIPrep]] (David Welch)
# [[2012_Summer_Project_Week:Fast Fiducial Registration|Fast Fiducial Registration Module]] (David Welch)
# [[2012_Summer_Project_Week:ANTS Registation|ANTS Registation Module]] (David Welch)
# [[2012_Summer_Project_Week:Nipype Integration|Slicer/Nipype Integration]] (Hans Johnson)
# [[2012_Summer_Project_Week:DicomToNrrd|DicomToNrrdConverter Integration]] (Kent Williams)
# [[2012_Summer_Project_Week:4D shape analysis|4D shape analysis]] (James Fishbaugh, Marcel Prastawa, Guido Gerig)

==='''Atrial Fibrillation'''===
# Model-based segmentation of left Atrium using Graph-cuts (Gopal Veni, Ross Whitaker)
# [[DBP3:Utah:SlicerModuleCardiacRegistration|Cardiac MRI Registration Module]] (Alan Morris, Danny Perry, Josh Cates, Greg Gardner, Rob MacLeod)
# [[DBP3:Utah:VecReg|Vector-Valued Cardiac MRI Registration]] (Yi Gao, Josh Cates, Liang-Jia Zhu, Alan Morris, Danny Perry, Greg Gardner, Rob MacLeod, Sylvain Bouix, Allen Tannenbaum)
# [[DBP3:Utah:SlicerModuleAutoScar|Automatic Left Atrial Scar Detection]] (Danny Perry, Alan Morris, Josh Cates, Rob MacLeod)
# [[DBP3:Utah:SlicerModuleInhomogeneity|MRI Inhomogeneity Correction Filter]] (Alan Morris, Eugene Kholmovski, Josh Cates, Danny Perry, Rob MacLeod)
# OpenIGT for realtime MRI-guided RF ablation (Rob MacLeod, Junichi Tokuda)

==='''Device Integration with Slicer and General Image Guided Therapy'''===
# [[2012_Summer_Project_Week:iGyne|iGyne for Gyne Brachytherapy]] (Xiaojun Chen, Jan Egger, Tina Kapur, Steve Pieper)
# [[2012_Summer_Project_Week:Open_source_electromagnetic_trackers_using OpenIGTLink|Open-source electromagnetic trackers using OpenIGTLink]] (Peter Traneus Anderson, Tina Kapur, Sonia Pujol)
# [[2012_Summer_Project_Week:LiveUltrasound|Live Ultrasound]] (Tamas Ungi, Andinet Enquobahrie, Junichi Tokuda)
# [[2012_Summer_Project_Week:TransformRecorder|Transform Recorder]] (Simrin Nagpal, Tamas Ungi)
# [[2012_Summer_Project_Week:VertebraCTUSReg|Single Vertebra CT-US Registration]] (Samira Sojoudi, Saman Nouranian, Simrin Nagpal, Tamas Ungi, David Welch)

==='''General Segmentation'''===
#Semi-automated airway segmentation from 0.64mm lung CT datasets (Padraig Cantillon-Murphy, Pietro Nardelli)
# [[2012_Summer_Project_Week:QuantitativePETImageAnalysisModule|Quantitative PET Image Analysis Module]] (Markus Van Tol)
#Segmentation with Label Fusion (Ramesh Sridharan, Christian Wachinger, Polina Golland)

==='''General Registration'''===
# Interactive registration (Kunlin Cao GRC, Guillaume Pernelle BWH, Simrin Nagpal Queens)
# [[2012_Summer_Project_Week:NiftyReg|NiftyReg integration]] (Marc Modat, Sonia Pujol)
# [[2012_Summer_Project_Week:ElastixIntegration| Elastix integration]] (Stefan Klein, Sonia Pujol)
# [[2012_Summer_Project_Week:DTIRegistration| Highly Deformable DTI Registration for cases with large pathological variations]] (Aditya Gupta, Martin Styner, Matthew Toes)

==='''General Diffusion Tractography'''===
#
#

==='''Vessels'''===
#
#
==='''Infrastructure'''===

# [[2012_Summer_Project_Week:SelfTesting|Built-In Self-Testing (BIST) for Slicer]] (Steve, Julien, Jc, Sonia)
# [[2012_Summer_Project_Week:AnnotationModule|Annotation module redesign for Slicer]] (Nicole)
# Multivolume, nrrd, .... (Andriy, Jim)
# Python CLI modules (Demian, JC, Julien). See [http://www.na-mic.org/Bug/view.php?id=2039 #2039]
# Charting (Jim)
# [[2012_Summer_Project_Week:SimpleITK Integration|SimpleITK Integration]] (Hans Johnson, Bradley Lowekamp)
# GPU Editor Effects
# XTK/WebGL Exporter (Daniel, Nicolas - Children's Hospital Boston)
# General Usability issues (e.g. LM,FG,BG blending)
# Callback/Events/Observation best practice + Performance bottleneck discussion (Julien, Steve,...)
# XNAT/Slicer implementation (Sunil, Dan, Steve,...)
# Pilot QIN use cases for Slicer/XNAT integration (Sunil, Steve, Dan, Andriy, Jayashree,...)
# [[2012_Summer_Project_Week:ITKv4 Integration|ITKv4 Integration]] (Hans Johnson, Julien Finet, Jim). See [http://www.na-mic.org/Bug/view.php?id=2007 #2007]

==Background==

We are pleased to announce the 15th PROJECT WEEK of hands-on research and development activity for applications in Neuroscience, Image-Guided Therapy and several additional areas of biomedical research that enable personalized medicine. Participants will engage in open source programming using the [[NA-MIC-Kit|NA-MIC Kit]], algorithm design, medical imaging sequence development, tracking experiments, and clinical application. The main goal of this event is to move forward the translational research deliverables of the sponsoring centers and their collaborators. Active and potential collaborators are encouraged and welcome to attend this event. This event will be set up to maximize informal interaction between participants. If you would like to learn more about this event, please [http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week click here to join our mailing list].

Active preparation begins on Thursday, April 26th at 3pm ET, with a kick-off teleconference. Invitations to this call will be sent to members of the sponsoring communities, their collaborators, past attendees of the event, as well as any parties who have expressed an interest in working with these centers. The main goal of the kick-off call is to get an idea of which groups/projects will be active at the upcoming event, and to ensure that there is sufficient coverage for all. Subsequent teleconferences will allow for more focused discussions on individual projects and allow the hosts to finalize the project teams, consolidate any common components, and identify topics that should be discussed in breakout sessions. In the final days leading upto the meeting, all project teams will be asked to fill in a template page on this wiki that describes the objectives and plan of their projects.

The event itself will start off with a short presentation by each project team, driven using their previously created description, and will help all participants get acquainted with others who are doing similar work. In the rest of the week, about half the time will be spent in breakout discussions on topics of common interest of subsets of the attendees, and the other half will be spent in project teams, doing hands-on project work. The hands-on activities will be done in 40-50 small teams of size 2-4, each with a mix of multi-disciplinary expertise. To facilitate this work, a large room at MIT will be setup with several tables, with internet and power access, and each computer software development based team will gather on a table with their individual laptops, connect to the internet to download their software and data, and be able to work on their projects. Teams working on projects that require the use of medical devices will proceed to Brigham and Women's Hospital and carry out their experiments there. On the last day of the event, a closing presentation session will be held in which each project team will present a summary of what they accomplished during the week.

This event is part of the translational research efforts of [http://www.na-mic.org NA-MIC], [http://www.ncigt.org NCIGT], [http://nac.spl.harvard.edu/ NAC], [http://catalyst.harvard.edu/home.html Harvard Catalyst], [http://www.cimit.org CIMIT], and OCAIRO. It is an expansion of the NA-MIC Summer Project Week that has been held annually since 2005. It will be held every summer at MIT and Brigham and Womens Hospital in Boston, typically during the last full week of June, and in Salt Lake City in the winter, typically during the second week of January.

A summary of all past NA-MIC Project Events is available [[Project_Events#Past|here]].

== Logistics ==
*'''Dates:''' June 18-22, 2012.
*'''Location:''' MIT. [[Meeting_Locations:MIT_Grier_A_%26B|Grier Rooms A & B: 34-401A & 34-401B]].
*'''REGISTRATION:''' Please click [https://www.regonline.com/namic2012summerprojweek HERE] to do an on-line registration for the meeting that will allow you to pay by credit card. No checks will be accepted.
*'''Registration Fee:''' $300 (covers the cost of breakfast, lunch and coffee breaks for the week).
*'''Hotel:''' No room blocks have been reserved in any area hotel. Please select a [http://web.mit.edu/institute-events/visitor/stay.html |hotel of your choice] and make reservations as early as possible. Some area hotels are:
**marriott cambridge center
**marriott residence inn kendall square
**le meridien central square
**hotel marlowe cambridge
**royal sonesta hotel cambridge

== Preparation ==
# Please make sure that you are on the http://public.kitware.com/cgi-bin/mailman/listinfo/na-mic-project-week mailing list
# The NA-MIC engineering team will be discussing infrastructure projects in a kickoff TCON on April 26, 3pm ET. In the weeks following, new and old participants from the above mailing list will be invited to join to discuss their projects, so please make sure you are on it!
# By 3pm ET on Thursday May 10, all participants to add a one line title of their project to #Projects
# By 3pm ET on Thursday June 7, all project leads to complete [[Project_Week/Template|Complete a templated wiki page for your project]]. Please do not edit the template page itself, but create a new page for your project and cut-and-paste the text from this template page. If you have questions, please send an email to tkapur at bwh.harvard.edu.
# By 3pm on June 14: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Matt)
## Commit on each sandbox directory the code examples/snippets that represent our first guesses of appropriate methods. (Luis and Steve will help with this, as needed)
## Gather test images in any of the Data sharing resources we have (e.g. XNAT/MIDAS). These ones don't have to be many. At least three different cases, so we can get an idea of the modality-specific characteristics of these images. Put the IDs of these data sets on the wiki page. (the participants must do this.)
## Where possible, setup nightly tests on a separate Dashboard, where we will run the methods that we are experimenting with. The test should post result images and computation time. (Matt)
# Please note that by the time we get to the project event, we should be trying to close off a project milestone rather than starting to work on one...
# People doing Slicer related projects should come to project week with slicer built on your laptop.
## See the [http://www.slicer.org/slicerWiki/index.php/Documentation/4.0/Developers Developer Section of slicer.org] for information.
## Projects to develop extension modules should be built against the latest Slicer4 trunk.

2010 Summer Project Week Breakout Session:OpenIGTLink

2010-06-14T14:02:43Z

Andinet: /* Agenda */

Back to [[2010_Summer_Project_Week]]

Organizer: Junichi Tokuda 
Date: Thursday, June 24, 2010 
OpenIGTLink Home Page: [[OpenIGTLink]]

=Agenda=

Please note that this agenda is currently under construction and will be finalized by May 28th.

*9-10am:
**Case Experience
**Summary of OpenIGTLink
**Discussion on protocol version 2.
*10a-12pm: Hands-on session.
**Notes: [[Stealthlink Protocol]] (for reference)
*12-1pm: Break for lunch
*1-2pm: Demos of working OpenIGTLink based systems
**AIST demos (TBD)
*2-3pm: OpenIGTLink Library, 3D Slicer and other tools
*3-4pm: Simulator Discussion

Suggestions for agenda from TCON:
*Tracker simulator (Haiying)
*General session on simulators (maybe there should be a general discussion on this)
*BrainLab VectorVision-Slicer integration using OpenIGTLink
*Suggestions for hands-on session
**hello world type demo application
**5-10 minutes from each of the vendors on how they can use it?
**compare OpenIGTLink with Steathlink protocol
**hands-on help in WPI system up and running (Greg will confirm)
**planning to interface aurora tracker with Slicer using OpenIGTLink (Tamas)
**discussion about the implementation -- message queueing idea/transport layer (Patrick Georgetown, Steve to followup)
*** Comments from Patrick
**** For latest update on this, please refer to the CTK wiki: http://www.commontk.org/index.php/Documentation/Messaging
**** '''Suggestion:''' use [http://msdn.microsoft.com/en-us/library/ff647328.aspx Message Bus] and [http://msdn.microsoft.com/en-us/library/ff649664(v=pandp.10).aspx Publisher/Subscriber] design pattern for system integration
**** OpenIGTLink can be used to define the common message schema, and ZeroMQ can be used to handle the transportation layer abstraction
**** [http://www.zeromq.org/ ZeroMQ] is a small and fast implementation of the [http://en.wikipedia.org/wiki/Advanced_Message_Queuing_Protocol Advanced Message Queuing Protocol] under the LGPL license
**** It supports both synchronous and asynchronous messaging mode
**** It supportsTCP, Multicast/PGM, Inter-process, and inter-thread transportation
**** CMake version of library can be found here http://github.com/PatrickCheng/zeromq2
**** API can be found here http://api.zeromq.org/zmq.html
--------------

=Notes=
==Discussion on OpenIGTLink Protocol version 2==
*Finalize version 2 protocol
**[[OpenIGTLink/ProtocolV2/Summary| Summary of version 2 protocol]]
**New support for image-guided systems
***Discussion on new commands is [[OpenIGTLink/Discussion/NewCommands|in progress]].
**Matlab integration
***There have been several requests for Matlab OpenIGTLink interface.
***[[OpenIGTLink/Matlab|Prototype Matlab/Octave interface]] is available.
***New message type to support "remote procedure call"??
**(Please put your agenda here)
==Dissemination, collaboration etc.)==
The following item is part of NCIGT. We need inputs from Ron and Tina.
*Tutorial (how we do now, and how it should be)
*web presence (how we are, and how it should be)
*Ctest (how we do)
*Use Slicer ML or dedicated ML?
==Hands-on session (11am-12pm)==
*Opportunity for IGT developers to consult with OpenIGTLink experts and find solutions for their project.
==OpenIGTLink Library, 3D Slicer and other tools==
*Features
*Message classes
*Example programs
*Timeline

<hr/>

=Demo Session=
==AIST demos==
*(TBD)

=Collaborators=
*list of potential collaborator

=Participants=
*Junichi Tokuda
*Nobuhiko Hata
*Haiying Liu

<hr/>

=Teleconference on May 27 (Thu) 3pm-=
==Objectives==
*Topics to discuss during the event
*Finalize the schedule
*Action items

==Participants==
*Please feel free to put your name here
*Junichi Tokuda (BWH)
*Tina Kapur, BWH

==Agenda==
* Agenda in the project week
**Summary of OpenIGTLink
***Short presentation about overview and updates of OpenIGTLink for those who are not in the presentation on Tuesday.
**Discussion on protocol version 2.
***New features for 3D Slicer
***Matlab
***Messages for sensor data (proposed by AIST project)
***Endoscope/camera control
**Hands-on session. Specifics of this session will be decided after the May 27th tcon.
**Demos of working OpenIGTLink based systems
**OpenIGTLink Library, 3D Slicer and other tools
***Matlab interfaces
***3D Slicer user interface
***Tutorials

* Demos (please feel free to add)
**IGSTK demo from Haiying
**AIST demo (may be video)
**New 3D Slicer OpenIGTLink IF

* Breakout session schedule
**Make sure that all participants can sessions they need
**Order of sessions

* Action items by Project Week
** List all potential applications
** List all problems, issues regrading the current protocol
** Feedbacks

2010 Summer Project Week Breakout Session:OpenIGTLink

2010-06-14T14:02:22Z

Andinet: /* Agenda */

Back to [[2010_Summer_Project_Week]]

Organizer: Junichi Tokuda 
Date: Thursday, June 24, 2010 
OpenIGTLink Home Page: [[OpenIGTLink]]

=Agenda=

Please note that this agenda is currently under construction and will be finalized by May 28th.

*9-10am:
**Case Experience
**Summary of OpenIGTLink
**Discussion on protocol version 2.
*10a-12pm: Hands-on session.
**Notes: [[Stealthlink Protocol]] (for reference)
*12-1pm: Break for lunch
*1-2pm: Demos of working OpenIGTLink based systems
**AIST demos (TBD)
*2-3pm: OpenIGTLink Library, 3D Slicer and other tools
*3-4pm: Simulator Discussion

Suggestions for agenda from TCON:
*Tracker simulator (Haiying)
*General session on simulators (maybe there should be a general discussion on this)
*BrainLab-Slicer integration using OpenIGTLink
*Suggestions for hands-on session
**hello world type demo application
**5-10 minutes from each of the vendors on how they can use it?
**compare OpenIGTLink with Steathlink protocol
**hands-on help in WPI system up and running (Greg will confirm)
**planning to interface aurora tracker with Slicer using OpenIGTLink (Tamas)
**discussion about the implementation -- message queueing idea/transport layer (Patrick Georgetown, Steve to followup)
*** Comments from Patrick
**** For latest update on this, please refer to the CTK wiki: http://www.commontk.org/index.php/Documentation/Messaging
**** '''Suggestion:''' use [http://msdn.microsoft.com/en-us/library/ff647328.aspx Message Bus] and [http://msdn.microsoft.com/en-us/library/ff649664(v=pandp.10).aspx Publisher/Subscriber] design pattern for system integration
**** OpenIGTLink can be used to define the common message schema, and ZeroMQ can be used to handle the transportation layer abstraction
**** [http://www.zeromq.org/ ZeroMQ] is a small and fast implementation of the [http://en.wikipedia.org/wiki/Advanced_Message_Queuing_Protocol Advanced Message Queuing Protocol] under the LGPL license
**** It supports both synchronous and asynchronous messaging mode
**** It supportsTCP, Multicast/PGM, Inter-process, and inter-thread transportation
**** CMake version of library can be found here http://github.com/PatrickCheng/zeromq2
**** API can be found here http://api.zeromq.org/zmq.html
--------------

=Notes=
==Discussion on OpenIGTLink Protocol version 2==
*Finalize version 2 protocol
**[[OpenIGTLink/ProtocolV2/Summary| Summary of version 2 protocol]]
**New support for image-guided systems
***Discussion on new commands is [[OpenIGTLink/Discussion/NewCommands|in progress]].
**Matlab integration
***There have been several requests for Matlab OpenIGTLink interface.
***[[OpenIGTLink/Matlab|Prototype Matlab/Octave interface]] is available.
***New message type to support "remote procedure call"??
**(Please put your agenda here)
==Dissemination, collaboration etc.)==
The following item is part of NCIGT. We need inputs from Ron and Tina.
*Tutorial (how we do now, and how it should be)
*web presence (how we are, and how it should be)
*Ctest (how we do)
*Use Slicer ML or dedicated ML?
==Hands-on session (11am-12pm)==
*Opportunity for IGT developers to consult with OpenIGTLink experts and find solutions for their project.
==OpenIGTLink Library, 3D Slicer and other tools==
*Features
*Message classes
*Example programs
*Timeline

<hr/>

=Demo Session=
==AIST demos==
*(TBD)

=Collaborators=
*list of potential collaborator

=Participants=
*Junichi Tokuda
*Nobuhiko Hata
*Haiying Liu

<hr/>

=Teleconference on May 27 (Thu) 3pm-=
==Objectives==
*Topics to discuss during the event
*Finalize the schedule
*Action items

==Participants==
*Please feel free to put your name here
*Junichi Tokuda (BWH)
*Tina Kapur, BWH

==Agenda==
* Agenda in the project week
**Summary of OpenIGTLink
***Short presentation about overview and updates of OpenIGTLink for those who are not in the presentation on Tuesday.
**Discussion on protocol version 2.
***New features for 3D Slicer
***Matlab
***Messages for sensor data (proposed by AIST project)
***Endoscope/camera control
**Hands-on session. Specifics of this session will be decided after the May 27th tcon.
**Demos of working OpenIGTLink based systems
**OpenIGTLink Library, 3D Slicer and other tools
***Matlab interfaces
***3D Slicer user interface
***Tutorials

* Demos (please feel free to add)
**IGSTK demo from Haiying
**AIST demo (may be video)
**New 3D Slicer OpenIGTLink IF

* Breakout session schedule
**Make sure that all participants can sessions they need
**Order of sessions

* Action items by Project Week
** List all potential applications
** List all problems, issues regrading the current protocol
** Feedbacks

Microscopy Image Analysis

2010-06-11T15:05:00Z

Andinet: /* Participants */

= Open Workshop on Microscopy Image Analysis in ITK and VTK =
This workshop is part of the [[2010_Summer_Project_Week]] at MIT. The goal of this workshop is to foster the growth of a community of scientists interested in microscopy image analysis for biology using ITK and VTK

== Preparation ==
If you would like to participate in this workshop then please:
* Add your name to the "Participants" section below
* Add your project to [[2010_Summer_Project_Week#Microscopy Image Analysis|Microscopy Image Analysis]] projects list on the main page
* Register for the overall conference from [http://guest.cvent.com/i.aspx?4W%2cM3%2c8e73686a-1432-40f2-bc78-f9e18d8bce00 here]
* Create a wiki page describing your project following the preparation instructions on the [[2010_Summer_Project_Week#Preparation]] home page and link this to your project listing

== Background ==
Optical microscopy is by far the most common form of imaging in biomedical research due to its high spatial resolution (subcellular), high specificity (molecular in the case of fluorescence), and suitability for use in living specimens. A Google Scholar search for "fluorescence microscopy", only one of several types of optical microscopy, returns 1.7 million articles compared with < 1 million for "MRI". Traditionally, the vast majority of these users of microscopy have performed qualitative analysis on a small number of images, but this is quickly changing. There is increasingly a need to perform quantitative analysis on microscopy images and to perform this analysis on large image sets (>100,000 images). In addition to higher throughput, recent advances in microscopy have made higher dimensional imaging commonplace. Researchers now routinely capture microscopy images over the dimensions of space (x,y,z), time (t), and multiple channels of color (lambda). Due to the large datasets, high dimensions, and complexity of analysis, current approaches to microscopy image analysis relying on Java, Matlab, and “home brew” applications are reaching their limits. We believe that a community based effort centered on developing microscopy-specific algorithms and applications built on the C++ class libraries of VTK and ITK represents the best path forward.

== Focus ==
The focus of this workshop will be on segmentation and tracking of cells in optical microscopy images. Segmentation and tracking of cells represents a very common problem in microscopy image analysis. Although there is a common pipeline for many users (e.g. image preprocessing to remove noise, detection of seeds, detection of cells at single timepoints, tracking movements over time, data analysis) the algorithm parameters and algorithms themselves are often dependent on the specifics of the experimental setup. There is thus a strong need to develop a framework to allow users to choose algorithms and tune parameters to most importantly achieve robust segmentation and secondarily minimize computational cost.

==Format==
The format for this meeting will be as a “track” within the NAMIC Project Week 2010 meeting at MIT in Boston, MA on June 21-25. Participants in this workshop should all have specific coding projects relating to cell segmentation and tracking that they wish to complete within the week. Ideally these projects should be collaborative so as to benefit from the gathering of researchers at the conference. At the beginning of the meeting on Monday, workshop participants will present a 1 slide summary of the goals of their project as part of the overall meeting. This slide will take the form of a templated wiki page. For the rest of the week, workshop participants will sit in a common area and code on their projects. We will also have a microscopy breakout session on Wednesday. These project weeks tend to be quite productive because of the concentration of available expertise at the meeting. During the week we will also break from the coding to have a more formal discussion of our current individual efforts, the needs of the microscopy community, the technical issues of combining and exchanging code, and how we should move forward.

== Schedule ==
* Monday afternoon- 1 slide lightning talk of project planned for the week using your project page
* Wednesday afternoon
** 1:00pm - 2:20pm: Current efforts (20 minute talks per lab). The goal is to describe the user application you are focussed on, your software approach (demos of software are great), and how others can interface with your efforts.
*** 1:00pm: Megason Lab- Dept of Systems Biology, Harvard
**** Sean Megason - Microscopy image analysis for into imaging of embryogenesis
**** Lydie Souhait - Demo of GoFigure
**** Arnaud Gelas - Interfacing with the Megason Lab
*** 1:20pm: Palaniappan Lab- Univ of Missouri
*** 1:40pm: Machiraju Lab- Univ of Ohio
*** 2:00pm: Roysam Lab- Rensselaer Polytechnic Institute
*** 2:20pm: Gouaillard - CoSMo
** 2:40pm: Roundtable discussion of standards/interfaces
*** Image file types
*** Input-output interface for segmentation and tracking filters
*** Format for outputted data (e.g. automatic annotations of cell size, intensity, cell type)
*** Greatest common denominator of code: ITK classes, compound filters in ITK, plugins?
*** Common human tasks
**** Manual segmentation and editing of results
**** Visualization of results
** Future directions
* Friday- 1 slide summary of results for the week using your project page
* The rest of the time will be spent coding on projects

== Projects ==
The meat of this workshop is project work. This work should be collaborative to fully take advantage of everyone being together at the conference, to learn other people's approaches, and to flesh out the important needs of microscopy image analysis. If you need help formulating a project please contact Arnaud Gelas (arnaud_gelas@hms.harvard.edu) who can help as a matchmaker. Please list your projects in the [[2010_Summer_Project_Week#Microscopy Image Analysis|Microscopy Image Analysis Project]] section of the main page

== Participants ==
Please add your name to the list if you are interested in participating in this workshop
# Raghu Machiraju, Ohio State University
# Thierry Pecot, Ohio State University
# Shantanu Singh, Ohio State University
# Liya Ding, Ohio State University
# Kannappan Palaniappan, University of Missouri
# Ilker Ersoy, University of Missouri
# Adel Hafiane, ENSI-Bourges, France
# Yousef Al-Kofahi, Rensselaer Polytechnic Institute
# Kedar Grama, Rensselaer Polytechnic Institute
# Raghav Padmanabhan, Rensselaer Polytechnic Institute
# Arnaud Gelas, Harvard Medical School
# Kishore Mosaliganti, Harvard Medical School
# Nicolas Rannou, Harvard Medical School
# Antonin Perrot-Audet, Harvard Medical School
# Lydie Souhait, Harvard Medical School
# Sean Megason, Harvard Medical School
# Luis Ibanez, Kitware
# Andinet Enquobahrie, Kitware
# Gaetan Lehmann, INRA, Platform of Microscopy and Imaging of Micro-Organism, Animals and Ailments
# Mathieu Malaterre, CoSMo
# Alex. Gouaillard. A*STAR / CoSMo
# Sonia Pujol. Brigham and Women's Hospital
# Steve Pieper, Isomics, Inc.

Work-flow based Slicer IGT module

2009-01-03T14:51:09Z

Andinet:

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download the source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/)you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule plugin

= Tutorial =

Here is a tutorial powerpoint presentation [[http://www.na-mic.org/Wiki/images/9/98/IGTModuleTutorial.ppt]]

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=
* HelloWorld Workflow based Slicer module - Use the build instructions described above [[http://www.na-mic.org/Wiki/images/d/dc/HelloWorldModule.tgz]]

File:HelloWorldModule.tgz

2009-01-03T14:50:45Z

Andinet:

Work-flow based Slicer IGT module

2009-01-03T14:38:26Z

Andinet: /* Resources */

Work-flow based Slicer IGT module

2009-01-03T14:38:16Z

Andinet: /* Resources */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download the source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/)you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule plugin

= Tutorial =

Here is a tutorial powerpoint presentation [[http://www.na-mic.org/Wiki/images/9/98/IGTModuleTutorial.ppt]]

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=
# HelloWorld Workflow based Slicer module - Use the build instructions described above

2008 IGT Project Week Work-flow based Slicer Module for IGT application

2008-12-12T00:53:42Z

Andinet:

Back to [[2008_IGT_Project_Week#Projects]]

Team: Andinet Enquobahrie, Noby Hata

Goals:

#Create Slicer IGT generic module
#Provide generic interfaces

Approach:
#Create KWWidgets wizard skeleton
#Identify the major steps in IGT procedure and translate these steps into wizard interfaces

Results: The module is ready to be used. Detail information regarding the module can be found in

http://www.na-mic.org/Wiki/index.php/Work-flow_based_Slicer_IGT_module

2008 IGT Project Week Work-flow based Slicer Module for IGT application

2008-12-12T00:53:16Z

Andinet:

Back to [[2008_IGT_Project_Week#Projects]]

Team: Andinet Enquobahrie, Noby Hata

Goals:

#Create Slicer IGT generic module
#Provide generic interfaces

Approach:
#Create KWWidgets wizard skeleton
#Identify the major steps in IGT procedure and translate these steps into wizard interfaces

Results: The module is ready to be used. For detail information, refer

http://www.na-mic.org/Wiki/index.php/Work-flow_based_Slicer_IGT_module

2008 IGT Project Week Work-flow based Slicer Module for IGT application

2008-12-12T00:52:40Z

Andinet:

Back to [[2008_IGT_Project_Week#Projects]]

Team: Andinet Enquobahrie, Noby Hata

Goals:

#Create Slicer IGT generic module
#Provide generic interfaces

Approach:
#Create KWWidgets wizard skeleton
#Identify the major steps in IGT procedure and translate these steps into wizard interfaces

Results: The module is ready to be used. For detail information, refer the wiki page

http://www.na-mic.org/Wiki/index.php/Work-flow_based_Slicer_IGT_module

Work-flow based Slicer IGT module

2008-12-08T01:35:20Z

Andinet: /* Tutorial */

Work-flow based Slicer IGT module

2008-12-08T01:34:46Z

Andinet: /* Tutorial */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download the source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/)you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule plugin

= Tutorial =

Here is a tutorial power point presentation [[http://www.na-mic.org/Wiki/images/9/98/IGTModuleTutorial.ppt]]

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

File:IGTModuleTutorial.ppt

2008-12-08T01:34:14Z

Andinet:

Work-flow based Slicer IGT module

2008-12-07T17:07:59Z

Andinet: /* How to load SlicerIGTModule to Slicer */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download the source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/)you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule plugin

= Tutorial =

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

Work-flow based Slicer IGT module

2008-12-07T16:51:54Z

Andinet:

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download the source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/)you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule

= Tutorial =

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

Work-flow based Slicer IGT module

2008-12-07T16:51:03Z

Andinet: /* Build instructions */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download the source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/) , you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule

= Tutorial =

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

Work-flow based Slicer IGT module

2008-12-07T16:50:47Z

Andinet: /* How to load it to Slicer */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/) , you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load SlicerIGTModule to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule

= Tutorial =

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

Work-flow based Slicer IGT module

2008-12-07T16:50:22Z

Andinet: /* Build instructions */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your module subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/) , you should get the shared library "IGT.dll" for windows or "libIGT.so" for Unix build.

= How to load it to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule
= Tutorial =

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

Work-flow based Slicer IGT module

2008-12-07T16:49:31Z

Andinet:

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps involved in IGT procedure.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

= Documents =
*Slicer IGT Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]
*Slicer IGT Module : Wizard UI Design [http://www.na-mic.org/Wiki/images/c/c2/IGTModuleWizardDesign.ppt]

= Download source code =

Currently, SlicerIGT is a standalone module that needs to be build separately and then loaded to the Slicer application using a plugin mechanism. After thorough testing and validation, the module will be integrated with other Slicer Modules and be part of Slicer source tree for distribution.

= Build instructions =
* Download source code [[http://www.na-mic.org/Wiki/index.php/Image:SlicerIGTModule.tgz]]
* Specify your Slicer3_DIR build directory during CMake configuration
* Build the module

If you have successfully build the module, then in your modules subdirectory of your build ( SlicerIGTModuleBuild/lib/Slicer3/Modules/, you should get "IGT.dll" for windows, or libIGT.so for Unix build.

= How to load it to Slicer =
* Click on "Application Settings" in View menu
* Click on "Module settings"
* Add the path to your SlicerModule
= Tutorial =

=Events=

* IGT Project week - 2008 [[http://wiki.na-mic.org/Wiki/index.php/2008_IGT_Project_Week]]

=Timeline/Progress=
# End date: December 31, 2008

=Resources=

Work-flow based Slicer IGT module

2008-12-07T16:43:15Z

Andinet: /* Build instructions */

Work-flow based Slicer IGT module

2008-12-07T16:36:42Z

Andinet:

Work-flow based Slicer IGT module

2008-12-07T16:34:44Z

Andinet:

File:SlicerIGTModule.tgz

2008-12-07T16:34:28Z

Andinet:

2008 IGT Project Week Work-flow based Slicer Module for IGT application

2008-12-03T20:40:44Z

Andinet:

Back to [[2008_IGT_Project_Week#Projects]]

Team: Andinet Enquobahrie, Sebastian Barre, Stephen Aylward, Noby Hata

Goals:

#Create Slicer IGT generic module
#Provide generic interfaces

Approach:
#Create KWWidgets wizard skeleton
#Identify the major steps in IGT procedure and translate these steps into wizard interfaces

Results (to be completed and presented at the end of the week):

2008 IGT Project Week Work-flow based Slicer Module for IGT application

2008-12-03T20:34:21Z

Andinet:

Back to [[2008_IGT_Project_Week#Projects]]

Team: Andinet Enquobahrie, Sebastian Barre, Stephen Aylward, Noby Hata

Goals:

#Create KWWidgets wizard skeleton for IGT applications in Slicer
#Identify the major steps in IGT procedure and translate these steps into wizard interfaces

Approach:

Results (to be completed and presented at the end of the week):

2008 IGT Project Week

2008-12-02T00:04:32Z

Andinet: /* Confirmed Attendees */

=Introduction=
<gallery perrow="4" widths="200px">
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]
Image:Nac.png|[http://nac.spl.harvard.edu/ Neuroimage Analysis Center]
Image:Cimit_logo.gif|[http://www.cimit.org CIMIT]
</gallery>
'''Dates: Monday, December 8th to Friday, December 12th'''

Location: SPL facility at 1249 Boylston Street, Boston MA ([http://www.spl.harvard.edu/pages/Directions#Getting_to_1249_Boylston_Street. Directions]) (See here for information about area [[Boston_Hotels|hotels]].)

IGT Project Week is a hands-on event that will involve various scientific, clinical, and engineering activities that are part of building image-guided therapy systems. Please note that is '''not''' a week long session of lectures and/or slide presentations. Instead, active researchers in the field will gather for a week to get actual work done on projects that they have identified ahead of time. A fair amount of effort will be put into phone calls between the hosts and the participants in the month leading upto the event to ensure that every participant belongs to a project that makes sense to be pursued in such a collaborative setting. Depending on the needs of the projects, the hosts, NCIGT at Brigham and Women's Hospital, will reserve time at appropriate research imaging and therapy equipment.

A week before the event, a teleconference will be held with confirmed participants to review the scope of the work that they will collaboratively pursue during this week. The event itself will start with short presentation by each project team to allows all participants to be acquainted with others who are doing similar work. In the rest of the week, most of the time will be spent doing hands-on programming, imaging, algorithm design, phantom or animal experiments or other validation in small project teams. Given that this is the first stand-alone IGT event of this kind, we expect to have about 5-10 teams of size 3-4 each. To facilitate this work, a conference room will be setup with several tables, with internet and power access, to allow teams to either work on their own laptops. Based on the project requirements, times will also be reserved on the research imaging equipment and therapy equipment at Brigham and Women's Hospital. On the last day of the event, a closing presentation session will be held in which each project team will present a summary of what they accomplished during the week.

This event is modeled after the [http://www.na-mic.org/Wiki/index.php/Project_Events NA-MIC Project Week] and its main goal is to foster a hand-on image-guided therapy systems community. The first event is being organized by NCIGT and several other NIH funded grants, and the outcome at this meeting will determine the format and frequency of future events. Unfortunately, no travel support is available from NCIGT for this event; it must be sponsored by their host institution/grant.

If you are interested in joining this event, please send an email to Tina Kapur: tkapur at bwh.harvard.edu

=Agenda=

==Monday==
Please note that Monday's session will be held at The Ledge Building located at One Brigham Circle Room BC-4-004 F

*1:30-3:30pm: Presentation of all Projects
*3:30-5pm: Start Project Work

==Tuesday==
Please note that the rest of the week will be held at the 2nd floor conference room, 1249 Boylston Street.

*9am: Breakfast
*10am-noon: Non-rigid Registration Breakout session
*noon: lunch
*1-5pm: Work
*3pm: coffee

==Wednesday==
*9am: Breakfast
*9am-noon: Work
*noon: lunch
*1pm: Journal Club Talk: James Balter, University of Michigan: "Finding the truth: Surrogates and Sampling for Setup and monitoring of treatment"
*2-5pm: Work
*3pm: coffee

==Thursday==
*9am: Breakfast
*10am-noon: Tissue Characterization Breakout Session
*9am-noon: Work
*noon: lunch
*1-5pm: Work
*3pm: coffee

==Friday==
*9am: Breakfast
*10am: Review of Progress
*12pm: adjourn

=Projects=

This is a working list of projects for this week.

#Fast Imaging Library (Scott Hoge,Bob Kraft)
#Nonrigid MR-ULS Registration Algorithms development for neurosurgery (Sandy Wells, Stephen Aylward, Tina Kapur, Matt Toews, Louis Collins)
#Nonrigid registration methods for tracking targets during Prostate MRgFUS (Nathan McDannold, Ben Schwartz, Sandy Wells, Steve Haker, Nicu Archip)
#Dynamic control of the MRI acquisition based on US-based signals. This would be to apply existing technologies developed for IGT (such as optical-based tracking of a biopsy or ablation probe). (Nathan McDannold, Ben Schwartz, Ehud Schmidt)
#Analysis of dynamic contrast enhanced imaging for (Team TBD)
##Developing models of BBB disruption to optimize drug delivery;
##Mapping of tissue perfusion for modeling tissue parameters for treatment planning for MRgFUS;
##Distinguishing between residual tumor and the edge of the ablated region after MRgFUS.
#RF Ablation System (Ziv Yaniv Georgetown, Noby Hata)
#Volume Rendering for IGT using CUDA (Xenios Papademeteris, Noby Hata)
#Realtime Tractography for Neurosurgery (Noby Hata, Haiying Liu, Alex Golby, Isaiah Norton)
#Prostate Robotics (Junichi Tokuda, Noby Hata, Clif Burdette, Jack Blevins, Clare Tempany)
#Work-flow based Slicer Module for IGT application (Andinet Enquobahrie, Noby Hata)
#Tissue Characterization (Sharon Peled, and others?)

=Confirmed Attendees=
#Ziv Yaniv, Georgetown - Monday 11:00pm-Wednesday 3pm
#Andinet Enquobahrie, Kitware- Monday 1:30pm-Tuesday 5pm
#Michel Audette, Kitware - Monday 1:30pm-Friday noon
#Xenios Papademetris, Yale- Monday 1:30pm-Tuesday 5pm.
#John Onofrey, Yale-Monday 1:30pm-Tuesday 5pm
#Sandy Wells, BWH- Monday 1:30pm-Friday noon
#Louis Collins, MNI- Tuesday 9am -Wednesday 5pm
#Tina Kapur, BWH - Monday 1:30pm-Friday noon
#Matt Towes, BWH - Monday 1:30pm-Friday noon
#Noby Hata, BWH - Monday 1:30pm-Friday noon
#Steve Pieper, BWH - Monday 1:30pm-Friday noon
#Katie Hayes, BWH - Monday 1:30pm-Friday noon
#Scott Hoge, BWH - Monday 1:30pm-Friday noon
#Nathan McDannold, BWH - Tuesday 9am -Friday noon
#Ben Schwartz, BWH - Tuesday 9am -Friday noon
#Ron Kikinis, BWH- Monday 1:30pm-Friday noon
#Clare Tempany, BWH- Monday 1:30pm-3:30pm, Friday 10am-noon
#Ferenc Jolesz, BWH- Monday 1:30pm-3:30pm, Friday 10am-noon
#Junichi Tokuda, BWH - Monday 1:30pm-Friday noon
#Haiying Liu, BWH- Monday 1:30pm-Friday noon
#Greg Fischer, WPI- Monday 1:30pm-Friday noon
#Clif Burdette, AcousticMed Systems- Monday 1:30pm-Friday noon
#Jack Blevins, AcousticMed Systems- Monday 1:30pm-Friday noon
#Iulian Iordachita, JHU- Monday 1:30pm-Friday noon
#Sam Song, JHU- Monday 1:30pm-Friday noon
#Andriy Fedorov, BWH/W&M- Monday 1:30pm-Friday noon
#Haytham Elhawary, BWH- Monday 1:30pm-Friday noon
#Bob Kraft, Wake Forest Univ- Monday 1:30pm-Friday noon
#James Balter, U Michigan- Wednesday 9am-Thursday 5pm
#Paul Morrison, BWH - Monday 1:30pm-Friday noon

Work-flow based Slicer IGT module

2008-11-19T23:35:28Z

Andinet: /* Documents */

Work-flow based Slicer IGT module

2008-11-19T23:35:09Z

Andinet:

File:IGTModuleWizardDesign.ppt

2008-11-19T23:34:41Z

Andinet:

2008 IGT Project Week

2008-11-17T14:18:58Z

Andinet: /* Projects */

=Introduction=
<gallery perrow="4" widths="200px">
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]
Image:Nac.png|[http://nac.spl.harvard.edu/ Neuroimage Analysis Center]
Image:Cimit_logo.gif|[http://www.cimit.org CIMIT]
</gallery>
'''Dates: Monday, December 8th to Friday, December 12th'''

Location: SPL facility at 1249 Boylston Street, Boston MA ([http://www.spl.harvard.edu/pages/Directions#Getting_to_1249_Boylston_Street. Directions])

IGT Project Week is a hands-on event that will involve various scientific, clinical, and engineering activities that are part of building image-guided therapy systems. Please note that is '''not''' a week long session of lectures and/or slide presentations. Instead, active researchers in the field will gather for a week to get actual work done on projects that they have identified ahead of time. A fair amount of effort will be put into phone calls between the hosts and the participants in the month leading upto the event to ensure that every participant belongs to a project that makes sense to be pursued in such a collaborative setting. Depending on the needs of the projects, the hosts, NCIGT at Brigham and Women's Hospital, will reserve time at appropriate research imaging and therapy equipment.

A week before the event, a teleconference will be held with confirmed participants to review the scope of the work that they will collaboratively pursue during this week. The event itself will start with short presentation by each project team to allows all participants to be acquainted with others who are doing similar work. In the rest of the week, most of the time will be spent doing hands-on programming, imaging, algorithm design, phantom or animal experiments or other validation in small project teams. Given that this is the first stand-alone IGT event of this kind, we expect to have about 5-10 teams of size 3-4 each. To facilitate this work, a conference room will be setup with several tables, with internet and power access, to allow teams to either work on their own laptops. Based on the project requirements, times will also be reserved on the research imaging equipment and therapy equipment at Brigham and Women's Hospital. On the last day of the event, a closing presentation session will be held in which each project team will present a summary of what they accomplished during the week.

This event is modeled after the [http://www.na-mic.org/Wiki/index.php/Project_Events NA-MIC Project Week] and its main goal is to foster a hand-on image-guided therapy systems community. The first event is being organized by NCIGT and several other NIH funded grants, and the outcome at this meeting will determine the format and frequency of future events. Unfortunately, no travel support is available from NCIGT for this event; it must be sponsored by their host institution/grant.

If you are interested in joining this event, please send an email to Tina Kapur: tkapur at bwh.harvard.edu

=Agenda=

Monday
*1:30-3:30pm: Presentation of all Projects
*3:30-5pm: Start Working
Tuesday
*9-5: Work

Wednesday
*9-5: Work

Thursday
*9-5: Work

Friday
*10am: Review of Progress
*12pm: lunch and adjourn

=Projects=

This is a working list of projects for this week.

#Fast Imaging Library (Scott Hoge, Bruno Madore, external?)
#Nonrigid MR-ULS Registration Algorithms development for neurosurgery (Sandy Wells, Stephen Aylward, Tina Kapur, Matt Toews, Louis Collins)
#Nonrigid registration methods for tracking targets during Prostate MRgFUS (Nathan McDannold, Ben Schwartz?, Sandy Wells, Steve Haker, Nicu Archip)
#Dynamic control of the MRI acquisition based on US-based signals. This would be to apply existing technologies developed for IGT (such as optical-based tracking of a biopsy or ablation probe). (Nathan McDannold, Ben Schwartz?, Ehud Schmidt?, Others?)
#Analysis of dynamic contrast enhanced imaging for (Team TBD)
##Developing models of BBB disruption to optimize drug delivery;
##Mapping of tissue perfusion for modeling tissue parameters for treatment planning for MRgFUS;
##Distinguishing between residual tumor and the edge of the ablated region after MRgFUS.
#RF Ablation System (Ziv Yaniv Georgetown, Noby Hata)
#Volume Rendering for IGT using CUDA (Xenios Papademeteris, Noby Hata)
#Realtime Tractography for Neurosurgery? (Noby Hata, Haiying Liu, Alex Golby?, Isaiah Norton?)
#Prostate Robotics (Junichi Tokuda, Noby Hata, ?)
#Work-flow based Slicer Module for IGT application (Andinet Enquobahrie, Stephen Aylward, Sebastien Barre, Noby Hata, Peter Kazanzides )

=Confirmed Attendees=
#Ziv Yaniv, Georgetown
#Stephen Aylward, Kitware
#Luis Ibanez, Kitware
#Andinet Enquobahrie, Kitware
#Xenios Papademetris, Yale
#Sandy Wells, BWH
#Louis Collins, MNI
#Tina Kapur, BWH
#Matt Towes, BWH
#Noby Hata, BWH
#Steve Pieper, BWH
#Katie Hayes, BWH
#Scott Hoge, BWH
#Nathan McDannold, BWH
#Ron Kikinis, BWH
#Clare Tempany, BWH
#Ferenc Jolesz, BWH
#Junichi Tokuda, BWH
#Haiying Liu, BWH
#Greg Fischer, WPI
#Clif Burdette, AcousticMed Systems
#Jack Blevins, AcousticMed Systems
#Iulian Iordachita, JHU
#Sam Song, JHU
#Andriy Fedorov, BWH/W&M
#Haytham Elhawary, BWH

=Tentative Attendees=
#Mike Miga, Vanderbilt
#Bob Kraft, Wake Forest Univ
#Nathanael Kuo, JHU

2008 IGT Project Week

2008-10-30T11:52:39Z

Andinet: /* Confirmed Attendees */

=Introduction=
<gallery perrow="2" widths="200px">
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]
Image:Nac.png|[http://nac.spl.harvard.edu/ Neuroimage Analysis Center]
Image:Cimit_logo.gif|[http://www.cimit.org CIMIT]
</gallery>
'''Dates: Monday, December 8th to Friday, December 12th'''

Location: SPL facility at 1249 Boylston Street, Boston MA

IGT Project Week is a hands-on event that will involve various scientific, clinical, and engineering activities that are part of building image-guided therapy systems. Please note that is not a week long session of lectures and/or slide presentations. Instead, active researchers in the field will gather for a week to get actual work done on projects that they have identified ahead of time. A fair amount of effort will be put into teleconferences in the month leading upto the event to ensure that every participant belongs to a project that makes sense to be pursued in such a collaborative setting. Depending on the needs of the projects, the hosts, NCIGT at Brigham and Women's Hospital, will reserve time at appropriate research imaging and therapy equipment.

About a month before the event, a teleconference will be held with interested participants to determine the scope of the work that they will collaboratively pursue during this week. The event itself will start with short presentation by each project team to allows all participants to be acquainted with others who are doing similar work. In the rest of the week, most of the time will be spent doing hands-on programming, imaging, algorithm design, phantom or animal experiments or other validation in small project teams. Given that this is the first stand-alone IGT event of this kind, we expect to have about 5-10 teams of size 3-4 each. To facilitate this work, a conference room will be setup with several tables, with internet and power access, to allow teams to either work on their own laptops. Based on the project requirements, times will also be reserved on the research imaging equipment and therapy equipment at Brigham and Women's Hospital. On the last day of the event, a closing presentation session will be held in which each project team will present a summary of what they accomplished during the week.

This event is modeled after the NA-MIC Project Week and its main goal is to foster a hand-on image-guided therapy systems community. The first event is being organized by NCIGT and several other NIH funded grants, and the outcome at this meeting will determine the format and frequency of future events. Unfortunately, no travel support is available from NCIGT for this event; it must be sponsored by their host institution/grant.

If you are interested in joining this event, please send an email to Tina Kapur: tkapur at bwh.harvard.edu

=Agenda=

Monday
*1:30-3:30pm: Presentation of all Projects
*3:30-5pm: Start Working
Tuesday
*9-5: Work

Wednesday
*9-5: Work

Thursday
*9-5: Work

Friday
*10am: Review of Progress
*12pm: lunch and adjourn

=Tentative Projects=
This list will be populated shortly...

* Fast Imaging Library (Hoge, Madore)

=Confirmed Attendees=
#Kevin Cleary, Georgetown
#Ziv Yaniv, Georgetown
#Stephen Aylward, Kitware
#Luis Ibanez, Kitware
#Andinet Enquobahrie, Kitware
#Xenios Papademetris, Yale
#Sandy Wells, BWH
#Tina Kapur, BWH
#Noby Hata, BWH
#Steve Pieper, BWH
#Katie Hayes, BWH
#Scott Hoge, BWH
#Nathan McDannold, BWH
#Ron Kikinis, BWH
#Clare Tempany, BWH
#Ferenc Jolesz, BWH

=Tentative Attendees=
#Mike Miga, Vanderbilt
#Bob Kraft, Wake Forest Univ

IGT:ToolKit/Slicer-IGT

2008-10-22T13:29:53Z

Andinet: /* Useful Links */

Back to [[IGT:ToolKit|IGT:ToolKit]]

==='''Disclaimer'''===
Slicer and Slicer for IGT have been designed for research purposes only and have not been reviewed or approved by the Food and Drug Administration or by any
other agency. YOU ACKNOWLEDGE AND AGREE THAT CLINICAL APPLICATIONS ARE NEITHER RECOMMENDED NOR ADVISED. Read the [[http://wiki.na-mic.org/Wiki/index.php/Slicer License for Slicer]] for details. One may use '''Slicer for Image Guided Therapy (IGT)''' in clinical studies at his/her own risk after approval from his/her institution through its own IRB certification procedure. The example clinical cases listed in this website are either from mock-up or clinical validation study approved by IRB that weighed the merit against the risk of using Slicer for IGT, which is not recommended for clinical use. For more information about the human clinical trials, visit NIH-NCI web site [http://www.cancer.gov/clinicaltrials/learning/page3].

==='''People'''===
Sandy Wells (U41 Computational Core PI) 
Nobuhiko Hata, PhD (Slicer IGT Project Director) 
Alex Golby, MD (Neurosurgery) 
Haiying Liu, MS (Senior Engineer) 
Clare Tempany, MD (Prostate Therapy) 

==='''Summary of IGT Functions in Slicer'''===
3D Slicer [http://wiki.na-mic.org/Wiki/index.php/Slicer] (simply Slicer) is a multi-platform, free open source software (FOSS) for visualization and image computing. The Slicer IGT project is aimed at extending Slicer for Image Guided Therapy. Currently, we supports the following IGT functions:

* Free open-source software for Image Guided Therapy research
* Provides software foundation (GUI, Image I/O, 3D viewer, tracker support), and you can focus on developping your original clinical application
* Available for Windows, Mac, Linux
* Access to state-of-art scientific medical image processing algorithms as well as most of commercial tracking devices
* [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT#Events Affiliated scientific workshops and seminars] to discuss and exchange ideas
* Increasing visibility of your research in IGT community using popular software platform
* Available for commercialization by concealing proprietary codes*

(*) Acknowledgment needed

==='''Using Slicer for IGT'''===
* [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/For_Clinicians '''Guidelines for Clinicians''']
* [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/For_Developers '''Develop your IGT projects with Slicer''']
* [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/Screenshots '''Slicer 2 Screenshots''']
* [http://www.na-mic.org/Wiki/index.php/Slicer3:VisualBlog '''Slicer 3 VisualBlog''']

==='''Events'''===
* '''[[AHM_2008|January 6-11, 2008, AHM, EAB, Project Half Week]]
* [[Slicer3:Spring-2008-User-Training|Spring 2008]] (Wednesday February 20th, 9 AM to 11 AM) Slicer3 user Training Workshop at the SPL 1249 Boylston St, Boston
* March 24-27 2008: [[2008_Engineering_review_at_Utah|2008 Engineering review at Utah]]
* April 14, 2008: Full day Slicer 3 Users and Plug-in Workshop hosted by UNC-Chapel Hill faculty
* '''[[2008_Summer_Project_Week|June 23-27, 2008, Summer Project Week]]'''
* September 6-9, 2008 [http://miccai2008.rutgers.edu/ MICCAI] Submitted for consideration a full day Slicer 3 Users and Plug-in Workshop
* November 30 through December 5, 2008 [http://rsna2008.rsna.org/ RSNA] Proposal for a daily 2 hour 3D Slicer as DICOM viewer training Workshop submitted.

==='''Useful Links'''===
* [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/Collaborators_and_Sponsors Collaborators and Sponsors]
* [http://wiki.ncigt.org/index.php/U41:cc:SA_Slicer_Engineering Internal Developers Page (authorization required)]
* [http://wiki.na-mic.org/Wiki/index.php/Slicer-IGT/GPU-IGT GPU accelerated medical image processing for IGT]
* [[Slicer-IGT/VTK-MIST|VTK-Mist integration for fast volume rendering]]
* [[3D Ultrasound Module in Slicer 3]]
* [[Work-flow based Slicer IGT module]]

Work-flow based Slicer IGT module

2008-10-22T13:27:08Z

Andinet: /* Objective */

Work-flow based Slicer IGT module

2008-10-22T13:25:45Z

Andinet: /* Misc notes */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps described for this application.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

=Events=

=Timeline/Progress=
# End date: December 31, 2008

=Misc notes=
*Design document [http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]

=Resources=

Work-flow based Slicer IGT module

2008-10-22T13:13:45Z

Andinet: /* Misc notes */

Work-flow based Slicer IGT module

2008-10-22T13:13:09Z

Andinet: /* Misc notes */

Work-flow based Slicer IGT module

2008-10-22T13:11:55Z

Andinet: /* Misc notes */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps described for this application.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

=Events=

=Timeline/Progress=
# End date: December 31, 2008

=Misc notes=
*[[ http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]]

=Resources=

Work-flow based Slicer IGT module

2008-10-22T13:11:36Z

Andinet: /* Misc notes */

=Objective=
* Create a skeleton for IGT work-flow based module
* Implement the first few steps described for this application.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

=Events=

=Timeline/Progress=
# End date: December 31, 2008

=Misc notes=
*[[ Design document http://www.na-mic.org/Wiki/index.php/Image:IGTWorkflowSkeleton.ppt#filelinks]]

=Resources=

File:IGTWorkflowSkeleton.ppt

2008-10-22T13:09:20Z

Andinet:

Work-flow based Slicer IGT module

2008-10-22T13:06:02Z

Andinet: /* Timeline/Progress */

Work-flow based Slicer IGT module

2008-10-22T13:05:52Z

Andinet: /* Timeline/Progress */

Work-flow based Slicer IGT module

2008-10-22T13:05:03Z

Andinet: /* Objective */

Work-flow based Slicer IGT module

2008-10-22T13:04:18Z

Andinet: New page: =Objective= * Create a skeleton for the IGT workflow based module. * Implement the first few steps described for this application. =People involved= *Andinet Enquobahrie (Kitware) *Sebast...

=Objective=
* Create a skeleton for the IGT workflow based module.
* Implement the first few steps described for this application.

=People involved=
*Andinet Enquobahrie (Kitware)
*Sebastian Barre ( Kitware )
*Stephen Aylward (Kitware)
*Nobuhiko Hata (BWH)
*Peter Kazanzides (JHU)

=Events=

=Timeline/Progress=
# End date December 31, 2008

=Misc notes=

=Resources=

IGT:ToolKit/Slicer-IGT

2008-10-22T12:57:28Z

Andinet: /* Useful Links */