NAMIC Wiki - User contributions [en]

Engineering:TCON 2011

2011-07-29T01:58:12Z

Lpfang: /* 2011-07-28 */

Back to [[TCON:Main|TCON:Main]], [[Events]]

__TOC__

==2011-07-28==
Attendees:

Jean-Christophe Fillion-Robin <jchris.fillionr@kitware.com>
Sharp, Gregory C. <GCSHARP@PARTNERS.ORG>
Bill Lorensen <bill.lorensen@gmail.com>
Andriy Fedorov <fedorov@bwh.harvard.edu>
Dominik Meier <meier@bwh.harvard.edu>
Dominique Belhachemi <domibel@debian.org>
Matt McCormick <matt.mccormick@kitware.com>
Mark Scully <mark-scully@uiowa.edu>
Ron Kikinis <kikinis@bwh.harvard.edu>
Steve Pieper <pieper@bwh.harvard.edu>
Demian Wassermann <demian@bwh.harvard.edu>
Tina Kapur <tkapur@bwh.harvard.edu>
Luping Fang <lpfang@bwh.harvard.edu>

Agenda:
*Moving from ITK3 to [http://www.vtk.org/Wiki/ITK#ITK_Version_4 ITK4]
**Impact to the developer community by the changes in features, API, algorithms
**[[Events:Slicer4-Review-07-2011#RSNA_2011_Targeted_Objectives|Planned Slicer 4.0 release at RSNA 2011]]
**Brainsfit in Slicer4
**[[2011_Winter_Project_Week:_Slicer4-ITK4_Continuous_Integration|Continous Integration of Slicer 4 and ITK 4]]: Some existing work by Bill Lorensen

Decisions:

RSNA version of Slicer4 will be be based on ITKv3

January version of Slicer4 will be based on ITKv4

A parallel build of Slicer4 will be possible during this time frame. There is a possibility that staticly linked executables based on ITKv4 will be made available even when Slicer4 is built with ITKv3

Ron confirmed his desire to reduce the amount of redundancy in the modules that are available in Slicer4. Hans offered to find redundant versions of tools, and reduce the redundancy.

There was a discussion about revisiting the IO enhancement that would help reduce memory copy in ITK for performance reasons. There may be other benefits in to the NRRD/NiFTi and other image IO readers that currently copy memory.
See: [https://github.com/Slicer/ITK/commit/12349021b152ac6546c2caf09bbbee4266baddad]

==2011-07-15==
Agenda:

* Open Source Software Competition in Korea: http://www.ossaward.org/index.php
* SPL-related web services will be down until tomorrow (mailing lists, sites, wikis, bug tracker...). Slicer svn will remain up (it is hosted at Kitware)

==2011-07-07==
Attendees: Steve, Ron, Luping, Jim, Stephen

* Jim is meeting with Andrey at GE about the prostate compare view use cases
* Discussion of ongoing slicer4 porting issues
** packaging on mac
** scripted displayble manager

==2011-06-30==
Attendees: Steve, Stephen, Tina, Nicole, Daniel, JC, J2, Ron

* Discuss Slicer release schedule (slicer4 and [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues slicer 3.6.4])
**Target Slicer product release for RSNA
**That means end of September at latest, so that there is time to work on documentation, training modules and testing/debugging.
**[[Events:Slicer4-Review-07-2011|Slicer4 Sprint planned for July 19-20 in Boston]]

==2011-06-23==

No phone call due to [[2011_Summer_Project_Week|Project Week]].

==2011-06-16==
Attendees: Xiadong, Tina, Marc, Nicole, Daniel (UPenn), Mohasen, Luping (SPL)

*Working meeting to do documentation: http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers
** [http://www.slicer.org/slicerWiki/index.php/Slicer4:SceneViewsModule Scene Views] updated
** [http://www.slicer.org/slicerWiki/index.php/Slicer4:EMSegment EMSegment] updated
** [http://www.slicer.org/slicerWiki/index.php/Slicer4:VMTK VMTK] updated

==2011-06-09==
Attendees: Jim, Xiadong, Sonia, Dominik, Dominique, Andreas, Ron, Tina, Nicole, Stephen, Mohasen, Mark Scully, Drew Rotham, Steve Pieper

Agenda:
*[http://www.na-mic.org/Wiki/index.php/Summer_2011_Tutorial_Contest 2011 Summer 2011 Tutorial contest ]dead-line extended until June 13
*DICOM projects at summer project week:
** Networking: putting ctk/dcmtk into slicer4; use case scenarios (Nicole, Steve, Noby, +?)
** ITKv4 DICOM Support: what features will be available? (Drew, Steve, Dan, Bill, +?)
** DICOMRT: mapping between RT/ITK/Slicer datastructures (Greg, Steve, Luis)
** DWI DICOM: what will we do without Xiaodong?!? (Xiaodong, Jim, Hans, Demian)
** other topics?
*Discuss the structure of Slicer 4 documentation in preparation for next week [http://wiki.slicer.org/slicerWiki/index.php/Documentation-4.0 Slicer 4 documentation placeholder]
*Agenda for next week will be to have a working meeting where appropriate people join the call and spend the hour on Slicer 4 documentation in preparation for project week http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers

==2011-06-02==

Attendees: Jim, Tina, Steve, Stephen, Demian, Szymon, Anthony Blumsfield, Xiaodong, Nicole, Julien, Suarez, Hans Johnson, Mohasen (VA Hospital), Lauren O'Donnell

Agenda:
*DTI projects at summer project week:
**Tractography Projects: http://wiki.slicer.org/slicerWiki/index.php/Slicer4:Diffusion#Features_to_be_addressed_before_the_Summer_NA-MIC_meeting
**http://wiki.na-mic.org/Wiki/index.php/2011_Summer_Project_Week#Projects
*Szymon (EPFL)
**OpenIGT interface Slicer and lab robot
*Anthony
**Spine segmentation project
*Mohasen
**

== 2011-05-26==

Attendees: Junichi, Tina, Tamas, Tamas, Stephen, Jim, Noby, Peter Kazanzies, Ehsan Azimi, Greg Fischer, Hao, Suarez, Csaba

* OpenIGTLink at Project Week

==2011-05-19==
Attendee: Jim, Steve, Dominik, Nicole, Xiaodong, Ross, Marc, Tina, Chiara Carminati (Milan), Adrian(MIT), Ramesh(MIT), Clement (UNC), Nadya (MGH)

Agenda:

*http://wiki.na-mic.org/Wiki/index.php/2011_Summer_Project_Week
*openIGTLink discussion next week.

==2011-05-12==

Attendees: Tina, Steve, Allen, Clement, Yi, Ivan, Yi Fi Lou, Jim, Stephen, Mark, Nicole,

Algorithm core participants discuss project week.
* RSS as Editor module
* Mass Spect for Brain Tumors (GaTech, NCIGT, BWH collaboration)
* Head and Neck cancer bone registration
* Multi-modality image registration

==2011-05-05==

No t-con.

==2011-04-28==

Agenda:

*Summer Project Week Kickoff -- Engineering Projects
**http://wiki.na-mic.org/Wiki/index.php/2011_Summer_Project_Week

==2011-04-21==
Attendees: Steve, Tina, Julien, Xiaodong, Dominik, Marc, Nicole, Dan, Danielle

Agenda:
*Slicer4 windows build question (Steve)
*MGH DBP discussion with Greg Sharp about multilayer treatment plans (Steve).
*visualizing deformation fields via RGB or vector fields via tensor image (Dominik, Steve)
*Since we had some time today, we did a pre-kickoff discussion of engineering projects: [[2011_Summer_Project_Week#Projects]]

==2011-04-14==
Attendees:

Agenda:

* Continue Slicer4 discussion
** Can schedule another call with Extension developers once the Factory is up and running with example extensions - http://www.na-mic.org/Wiki/index.php/2011_Winter_Project_Week:Breakout_Slicer#Extensions
** Any objection to removing all KWWidget code from slicer4 svn?
*** Jc: Option Slicer_BUILD_KWWIDGETS is not supported anymore (it means the build system has been cleaned already) Module and GUI folder code are still here though
** Wrapping Module code (MRML and Logic) in python
*** Jc: Already functional. Need to make wrapping works when module are build as extension
*** VTK classes associated with module should be properly exposed in python.
** Check out "what changed?" and "multivolume containers" in the [http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers#Projects list of Slicer 4 projects].
** Speed, Speed, Speed
*http://wiki.slicer.org/slicerWiki/index.php/Slicer4:VisualBlog

==2011-04-07==
Attendees: Jim, Steve, Tina, Dominik, Daniel, Nicole, JC, Suares, Demian, Kilian, Stephen, Andras, Tamas, Marc, Julien Finet, Danielle P.

Agenda:

* Slicer4
** Progress on Modules? Review and update of: http://www.na-mic.org/Wiki/index.php/2011_Winter_Project_Week:Breakout_Slicer
*** See comments associated with each modules on 2011_Winter_Project_Week:Breakout_Slicer page
** Any objection to removing all KWWidget code from slicer4 svn?
*** Jc: Option Slicer_BUILD_KWWIDGETS is not supported anymore (it means the build system has been cleaned already) Module and GUI folder code are still here though
** Wrapping Module code (MRML and Logic) in python
*** Jc: Already functional. Need to make wrapping works when module are build as extension
*** VTK classes associated with module should be properly exposed in python.
** Check out "what changed?" and "multivolume containers" in the [http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers#Projects list of Slicer 4 projects].
** Speed, Speed, Speed

==2011-03-24==
Attendees: Steve, Jim, Ann, Tina, Daniel, Suares, Marc, Jack, Nicole, Dominique, Ron

Agenda:

*Scientific Progress Report Discussion (Ann Adams will join at 3pm for 20 minutes)
* http://wiki.na-mic.org/Wiki/index.php/2011-Challenge:Segment-a-spine

==2011-03-24==
Attendees: Jim, Ron, Tina, Dominik, Dominique, Marc, Hans, Daniel, Nicole, Curt, Julien

* Slicer4 layouts - [[Media:FirstCompareViewInSlicer4.png|Hey a CompareView]]
* http://wiki.slicer.org/slicerWiki/index.php/Slicer3:UIDesign:WorkingProblems:LinkedControls
* http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer
* Licensing Question: CMTK/Brainsfit/

==2011-03-17==
Attendees: Jim, Ron, Marc, Tina, Nicole, Xiaodong, Greg, Dave Partika, Julien Finet

Agenda:
*Slicer 3.6.3: 64 bit versions, extensions
*the default location for a lot of slicer things is the user home directory. This should be changed. It causes problems in the SPL.
**where to put it, how to initiate?
*saving Slicer 4 mrml scenes as secondary capture (Ron)
**I would like to be able to save an entire scene as a [http://www.medicalconnections.co.uk/wiki/Creating_Secondary_Capture_Images dicom secondary capture]. This would allow to use accessible pacs systems as repositories for slicer scenes
**is there a way to incorporate thumbnails and descriptions from the new sceneviews?
*Slicer3 linked controls
** [http://www.slicer.org/slicerWiki/index.php/Slicer3:UIDesign:WorkingProblems:LinkedControls#cite_note-0 Jim's notes]
** [http://www.na-mic.org/Bug/view.php?id=1117 bug 117]

Notes:
* Dave P will build Windows builds of Slicer and extensions (a version without numpy, make a release note) and Steve will upload. Also the darwin, need to match svn version
* Default location: ask user for not home dir directory if default is not set
** related bugs: [http://www.na-mic.org/Bug/view.php?id=598 598]
* Secondary capture to interact with PACS
** tcon before project week with Jim, Nicole, Wendy, Steve to talk about infrastructure
* Linked controls
** Scroll wheel and arrows after Steve/Nicole's implementation of the link/orientation flag only scroll the current slice viewer and the other viewers with the same orientation, need more feedback from users/Andrey
** use cases between move all slices by copying this slices's RAS matrix to the other slice nodes, and linked increment slice that moves the other slices by an incremental distance
** reformat mode and linking. If in compare view mode and change one of multiple reformat slices, the other reformatted slice views will jump to that
** proposal: link some mode, so have more granularity than all or none (currently do have a one slice link toggle key)
*** reserve some link states so can by default link certain slices
* Ron to Xiaodong: use HAMMER on new brain atlas? not tried yet

==2011-03-10==

Attendees: Jim, Steve, Mark S., Nicole, Tina

Agenda:
* 3.6.4 release planning discussion [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues]
** In particular, fix for the linked slice views [http://www.na-mic.org/Bug/view.php?id=1115] (see also [http://www.na-mic.org/Bug/view.php?id=1003 1003])
** pan mode resets slice orientation ([http://www.na-mic.org/Bug/view.php?id=1117 bug #1117])
** What steps should be used for testing fixes for these bugs?
*** Are all use cases covered in currently [http://www.slicer.org/slicerWiki/index.php/Modules:MainApplicationGUI-Documentation-3.6#Linking_Control_of_Slice_Viewers documented behavior]?
***Show hide reformat widget behavior should incorporate the Michal Depa/Steve Pieper modifcations for linked views with reformat widget.
*** What optimizations (delayed updates) are we expected in for situations like compare view?
**when linked views are in the same location and visible, there are artifacts in the 3d viewer.
* More flexibility in the names of the results of CLI's. It would be good to have the ability to incorporate:
**Source volume name
**Module name
**some important parameters

Notes:
* linked slice views: Jim will write up a wiki page describing the expected behaviour, Steve and Nicole will debug
* CLI names: Jim says "yes"
* CLI compilation with separated header files: Jim, Steve, Mark to look into this via webex

==2011-03-03==

Attendees: Steve, Nicole, Jim, Andrey, Suarez, Ron, Stephen A., Daniel H, Dominique B., Xioadong, Greg Sharp, Mark S, Dominik, Hans

Agenda:
* C++/C wrapping of modules
** Hans and Greg figured out what was going wrong. In BRAINS tools they did a trick to get around Bill's trick. It takes 8 minutes to build BRAINSfit, to break it down into smaller compilation units and test it using ITK testing framework. It has a thin wrapper around program to add comparator functions. BRAINSfit is a small 3 line wrapper around BRAINS fit primary that takes argc and argv and includes generated header file. You can't include CLP header file in both compilation units since functions are defined in header file. See error at link time. If you put the right ifdef compiling for slicer and module description is defined you can make it work. Hans would like to see the CLP broken apart into a compile until and a header unit. Jim: harder to build and link - but is done through macros. Could have a test before include CLP.h. Hans: wants to be able to include the .h file in every file. Change: now would have to write a programCLP.h and programCLP.cxx.
** definitely needs to be done in Slicer4, tbd in Slicer3 (Hans using Slicer3 in his class).
*** the add executable, add library lines macros would need to be touched, need to link new object file
*** before when build both a shared and a command line module it would have to rebuild all the itk stuff twice, Casey made the change to not require it
*** Steve: came up wrt diffusion modules because they're using vtk nrrd readers that don't know about shared memory pointers
*** Hans: was building itk files three times for exec, lib, testing
** Jim will take a look at what breaks when try to split it out, code generation is easy, the add_executable will be a bit tricky
** Hans: suggests adding the .cxx to the GenerateCLP macro that defines the .h, to use in the CMakeLists. Hans will do the changes to all the execution modules that need to be changed once the infrastructure is changed (or not).
** One BRAINSfit test failing: any multi threaded mutual information code is suspect to the bug that they found. Quick fix: restrict to one thread, huge slow down (2-4x). Bug is in the Mattes mutual information optimize metric (?) in the registration framework for certain number of threads (4,7, etc). Stephen A will look at it after March 9.
* Annotation module widget priority for ROI nodes
** Ron, Daniel agrees to put it as higher than the bidimensional widget
** ROI widget is in the critical path for the volume rendering module, as well as others
** Reformat widget to priority list? will require taking something out. Will is working on a new widget, wait on that. Andrey says the reformat widget will be useful in crop volume as well. General Slicer4 widget (was integrated in the 3d viewer in Slicer3). Nicole is taking on the integration of the vtk widgets.
* Contributing modules to Slicer4 (policy review)
** by default new modules should got to an external repository (NITRC, external module) and remain there for a while until whole module goes into Slicer4 if it's determined to be core functionality
** Slicer4 core to remail lean, but external modules to be first class citizens.
** Documentation requirements, building and testing on the factory machine every night.
** If a new module fails it shouldn't break Slicer4 building or running
** Timeline on extension mechanism in Slicer4?
*** Steve wanted to get the base nightly builds working first, but need to get the extensions built nightly asap
*** new feature in next release of cdash and cmake, ctest upload command to upload binaries, can get a list of uploads from dashboard
*** harvest the information from the cdash dashboard and make it available to the extension manager rather than have the extension manager communicate directly with the (sometimes slow) dashboards. Only let uploads come from factory machines. Use VMs to run test code.
*** Steve will be the gatekeeper to allow code to be built and tested on the factory for now
**** flag for if it gets redistributed, critical/non critical build
**** allow to build locally but submit to main slicer dashboard (no code upload), already supported via Experimental
** Greg: wants to be able to build a bug fixed version of an extension for an old release (limited support for it)

==2011-02-10==

Attendees: Jim, Mark, Tina, Nicole, Dan

Agenda:
*Updates from ITK meeting
*http://wiki.na-mic.org/Wiki/index.php/2011_Progress_Report#Scientific_Report_Timeline
**Heads up given to everyone that progress report is due on wiki by mid April

==2011-02-03==
Attendees: Suares, Dominik, Kilian, Dominique, Nicole, Daniel, Stephen, Tina, Xiaodong

Agenda:
*ITK meeting in progress in Boston. Steve and Jim attending it.
*http://wiki.slicer.org/slicerWiki/index.php/Documentation-4.0
**Automatic documentation generation options are being explored at Kitware. Stephen will report as progress is made.
*http://wiki.na-mic.org/Wiki/index.php/2011_Progress_Report#Scientific_Report_Timeline
**Heads up given to everyone that progress report is due on wiki by mid April

==2011-01-27==

No tcon today.

==2011-01-20==

Attendees: Xiaodong, Wendy, Tina, Mark, Nicole, Dominik, Daniel,

Agenda

* [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues Slicer 3.6.3]
* http://wiki.na-mic.org/Wiki/index.php/2011_Winter_Project_Week
* http://wiki.na-mic.org/Wiki/index.php/Resources#Active_Job_Openings

==2011-01-06==

Attendees: Steve, Stephen, Jim, Ron, Tina, Dan Marcus, Xiaodong

Agenda:

*News: DCMTK 3.6 was released today
* http://wiki.na-mic.org/Wiki/index.php/2011_Winter_Project_Week#Projects
* Command line module logic, supporting multiple argument for images in Slicer3/4
* Discussion of ITK support for large (greater than 4Gig) image volumes on win64. This will be further investigated at project week. It is only one of several issues to be researched as part of porting slicer3 and slicer4 to win64. Dave Partyka has a [[2011_Winter_Project_Week:64bit_Windows_Builds|project to work on this]] at project week.

Events:Slicer4-Review-07-2011

2011-07-18T21:23:45Z

Lpfang: /* Attending */

=What=
Slicer 4 review and programming sprint
=When=
July 19, 10 am -21, 4pm 2011

=Who=
Slicer 4 core programmers
=Where=
Demo room, 2nd floor, 1249 Boylston Street, Boston, MA
=Why=
*Identify roadmap for a Slicer 4 product release for the [http://www.na-mic.org/Wiki/index.php/RSNA2011_Planning Nov 27-Dec.2 RSNA demos at the 3DSlicer Booth]

=Work on=
==Main Topics==
*Critical Features
*Bug fixes
*Download setup and integration with the existing Slicer website

== Priority TBD ==
===UI===
[[image:SlicerColorSelector.PNG|400px|right|thumb|SlicerColorSelector]]
* Reformat capabilities: We need a widget and possibly a slider based interface.
* Main GUI
** face lift for the Slice viewers: reduce permanent non-image components. Reduce the number and depth of submenus.
** 3D viewer should have similar appearance to slice viewers
* Update tutorials
** After main gui
** Using GUI Testing
* Volume rendering transfer function
** Jittery, and banding
** Threshold
** Better appearance of the elements of the transfer function. They look ugly and are not antialiased. Check the graph in [https://www.ohloh.net/p/slicer Ohloh] and mouse over it. Looks much nicer!
** Group selection and shifting
*Color selector
**the default color selector should be the one that is slicer customized, not the Qt default.
**add search function to the labels

===Under the hood===
* GPU Volume Rendering
** Support for ATI and MAC
** How many GPU render engines to support/provide?
***Ron says: I just need a single one that works for flythroughs and can handle the combination of volume rendering, cross-sections, surface models, annotations
*hierarchies
**display: the current display is confusing.
**drag and drop capability
* Annotations
** vtkWidgets
** GUI layout
** compositing with volume rendering does not work properly
** Working group (?)

===Infrastructure===
* Move to git/gerrit (TBD - can it be used with git-svn or is the suggestion to retire svn?)
* GUI Testing
** Instrumenting CTK widgets
** Conversion of tutorials to tests
** What will this provide that [http://sikuli.org/ Sikuli] does not? Sonia is ready to use Sikuli unless there is a good reason not to.
* Tk/Tcl
** Removing the last dependencies in core interaction loops
** Maintain functionality for Editor
* Performance optimization
** Module for profiling events
* Extensions
** Support for superbuild
** Requirements for testing, documentation, tutorials, and continued support from developers
*** How to name different levels of compliance
* Downloads
** Statistics on packages and on individual extensions
** Web pages
** Technologies
* Charts
** Reference Implementation (Marcus)
* MIDAS
** sceneviews support
* Interactive CLI modules
=== Compilation ===
* Fix numpy builds on win64
** Need to embed manifests in numpy pyd files
* Fix win64 tcl version
** currently permission issue with dlls in win64 slicerlib mirror
** currently using tcl8.4 on win32 and elsewhere but tcl8.5 on win64 (should use the same everywhere if possible)

=Agenda=

=Attending=
#Ron Kikinis
#Steve Pieper
#Nicole Aucoin
#Julien Finet
#Daniel Haehn (only 07/19)
#Jean-Christophe Fillion-Robin
#Stephen Aylward
#Will Schroeder
#Jim Miller
#Suares Tamekue Tatuebu
#Luping Fang

Engineering:TCON 2011

2011-06-26T01:50:24Z

Lpfang: /* 2011-06-16 */

Back to [[TCON:Main|TCON:Main]], [[Events]]

__TOC__

==2011-06-16==
Attendees: Xiadong, Tina, Marc, Nicole, Daniel (UPenn), Mohasen, Luping (SPL)

*Working meeting to do documentation: http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers
** [http://www.slicer.org/slicerWiki/index.php/Slicer4:SceneViewsModule Scene Views] updated
** [http://www.slicer.org/slicerWiki/index.php/Slicer4:EMSegment EMSegment] updated
** [http://www.slicer.org/slicerWiki/index.php/Slicer4:VMTK VMTK] updated

==2011-06-09==
Attendees: Jim, Xiadong, Sonia, Dominik, Dominique, Andreas, Ron, Tina, Nicole, Stephen, Mohasen, Mark Scully, Drew Rotham, Steve Pieper

Agenda:
*[http://www.na-mic.org/Wiki/index.php/Summer_2011_Tutorial_Contest 2011 Summer 2011 Tutorial contest ]dead-line extended until June 13
*DICOM projects at summer project week:
** Networking: putting ctk/dcmtk into slicer4; use case scenarios (Nicole, Steve, Noby, +?)
** ITKv4 DICOM Support: what features will be available? (Drew, Steve, Dan, Bill, +?)
** DICOMRT: mapping between RT/ITK/Slicer datastructures (Greg, Steve, Luis)
** DWI DICOM: what will we do without Xiaodong?!? (Xiaodong, Jim, Hans, Demian)
** other topics?
*Discuss the structure of Slicer 4 documentation in preparation for next week [http://wiki.slicer.org/slicerWiki/index.php/Documentation-4.0 Slicer 4 documentation placeholder]
*Agenda for next week will be to have a working meeting where appropriate people join the call and spend the hour on Slicer 4 documentation in preparation for project week http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers

==2011-06-02==

Attendees: Jim, Tina, Steve, Stephen, Demian, Szymon, Anthony Blumsfield, Xiaodong, Nicole, Julien, Suarez, Hans Johnson, Mohasen (VA Hospital), Lauren O'Donnell

Agenda:
*DTI projects at summer project week:
**Tractography Projects: http://wiki.slicer.org/slicerWiki/index.php/Slicer4:Diffusion#Features_to_be_addressed_before_the_Summer_NA-MIC_meeting
**http://wiki.na-mic.org/Wiki/index.php/2011_Summer_Project_Week#Projects
*Szymon (EPFL)
**OpenIGT interface Slicer and lab robot
*Anthony
**Spine segmentation project
*Mohasen
**

== 2011-05-26==

Attendees: Junichi, Tina, Tamas, Tamas, Stephen, Jim, Noby, Peter Kazanzies, Ehsan Azimi, Greg Fischer, Hao, Suarez, Csaba

* OpenIGTLink at Project Week

==2011-05-19==
Attendee: Jim, Steve, Dominik, Nicole, Xiaodong, Ross, Marc, Tina, Chiara Carminati (Milan), Adrian(MIT), Ramesh(MIT), Clement (UNC), Nadya (MGH)

Agenda:

*http://wiki.na-mic.org/Wiki/index.php/2011_Summer_Project_Week
*openIGTLink discussion next week.

==2011-05-12==

Attendees: Tina, Steve, Allen, Clement, Yi, Ivan, Yi Fi Lou, Jim, Stephen, Mark, Nicole,

Algorithm core participants discuss project week.
* RSS as Editor module
* Mass Spect for Brain Tumors (GaTech, NCIGT, BWH collaboration)
* Head and Neck cancer bone registration
* Multi-modality image registration

==2011-05-05==

No t-con.

==2011-04-28==

Agenda:

*Summer Project Week Kickoff -- Engineering Projects
**http://wiki.na-mic.org/Wiki/index.php/2011_Summer_Project_Week

==2011-04-21==
Attendees: Steve, Tina, Julien, Xiaodong, Dominik, Marc, Nicole, Dan, Danielle

Agenda:
*Slicer4 windows build question (Steve)
*MGH DBP discussion with Greg Sharp about multilayer treatment plans (Steve).
*visualizing deformation fields via RGB or vector fields via tensor image (Dominik, Steve)
*Since we had some time today, we did a pre-kickoff discussion of engineering projects: [[2011_Summer_Project_Week#Projects]]

==2011-04-14==
Attendees:

Agenda:

* Continue Slicer4 discussion
** Can schedule another call with Extension developers once the Factory is up and running with example extensions - http://www.na-mic.org/Wiki/index.php/2011_Winter_Project_Week:Breakout_Slicer#Extensions
** Any objection to removing all KWWidget code from slicer4 svn?
*** Jc: Option Slicer_BUILD_KWWIDGETS is not supported anymore (it means the build system has been cleaned already) Module and GUI folder code are still here though
** Wrapping Module code (MRML and Logic) in python
*** Jc: Already functional. Need to make wrapping works when module are build as extension
*** VTK classes associated with module should be properly exposed in python.
** Check out "what changed?" and "multivolume containers" in the [http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers#Projects list of Slicer 4 projects].
** Speed, Speed, Speed
*http://wiki.slicer.org/slicerWiki/index.php/Slicer4:VisualBlog

==2011-04-07==
Attendees: Jim, Steve, Tina, Dominik, Daniel, Nicole, JC, Suares, Demian, Kilian, Stephen, Andras, Tamas, Marc, Julien Finet, Danielle P.

Agenda:

* Slicer4
** Progress on Modules? Review and update of: http://www.na-mic.org/Wiki/index.php/2011_Winter_Project_Week:Breakout_Slicer
*** See comments associated with each modules on 2011_Winter_Project_Week:Breakout_Slicer page
** Any objection to removing all KWWidget code from slicer4 svn?
*** Jc: Option Slicer_BUILD_KWWIDGETS is not supported anymore (it means the build system has been cleaned already) Module and GUI folder code are still here though
** Wrapping Module code (MRML and Logic) in python
*** Jc: Already functional. Need to make wrapping works when module are build as extension
*** VTK classes associated with module should be properly exposed in python.
** Check out "what changed?" and "multivolume containers" in the [http://www.slicer.org/slicerWiki/index.php/Slicer4:Developers#Projects list of Slicer 4 projects].
** Speed, Speed, Speed

==2011-03-24==
Attendees: Steve, Jim, Ann, Tina, Daniel, Suares, Marc, Jack, Nicole, Dominique, Ron

Agenda:

*Scientific Progress Report Discussion (Ann Adams will join at 3pm for 20 minutes)
* http://wiki.na-mic.org/Wiki/index.php/2011-Challenge:Segment-a-spine

==2011-03-24==
Attendees: Jim, Ron, Tina, Dominik, Dominique, Marc, Hans, Daniel, Nicole, Curt, Julien

* Slicer4 layouts - [[Media:FirstCompareViewInSlicer4.png|Hey a CompareView]]
* http://wiki.slicer.org/slicerWiki/index.php/Slicer3:UIDesign:WorkingProblems:LinkedControls
* http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer
* Licensing Question: CMTK/Brainsfit/

==2011-03-17==
Attendees: Jim, Ron, Marc, Tina, Nicole, Xiaodong, Greg, Dave Partika, Julien Finet

Agenda:
*Slicer 3.6.3: 64 bit versions, extensions
*the default location for a lot of slicer things is the user home directory. This should be changed. It causes problems in the SPL.
**where to put it, how to initiate?
*saving Slicer 4 mrml scenes as secondary capture (Ron)
**I would like to be able to save an entire scene as a [http://www.medicalconnections.co.uk/wiki/Creating_Secondary_Capture_Images dicom secondary capture]. This would allow to use accessible pacs systems as repositories for slicer scenes
**is there a way to incorporate thumbnails and descriptions from the new sceneviews?
*Slicer3 linked controls
** [http://www.slicer.org/slicerWiki/index.php/Slicer3:UIDesign:WorkingProblems:LinkedControls#cite_note-0 Jim's notes]
** [http://www.na-mic.org/Bug/view.php?id=1117 bug 117]

Notes:
* Dave P will build Windows builds of Slicer and extensions (a version without numpy, make a release note) and Steve will upload. Also the darwin, need to match svn version
* Default location: ask user for not home dir directory if default is not set
** related bugs: [http://www.na-mic.org/Bug/view.php?id=598 598]
* Secondary capture to interact with PACS
** tcon before project week with Jim, Nicole, Wendy, Steve to talk about infrastructure
* Linked controls
** Scroll wheel and arrows after Steve/Nicole's implementation of the link/orientation flag only scroll the current slice viewer and the other viewers with the same orientation, need more feedback from users/Andrey
** use cases between move all slices by copying this slices's RAS matrix to the other slice nodes, and linked increment slice that moves the other slices by an incremental distance
** reformat mode and linking. If in compare view mode and change one of multiple reformat slices, the other reformatted slice views will jump to that
** proposal: link some mode, so have more granularity than all or none (currently do have a one slice link toggle key)
*** reserve some link states so can by default link certain slices
* Ron to Xiaodong: use HAMMER on new brain atlas? not tried yet

==2011-03-10==

Attendees: Jim, Steve, Mark S., Nicole, Tina

Agenda:
* 3.6.4 release planning discussion [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues]
** In particular, fix for the linked slice views [http://www.na-mic.org/Bug/view.php?id=1115] (see also [http://www.na-mic.org/Bug/view.php?id=1003 1003])
** pan mode resets slice orientation ([http://www.na-mic.org/Bug/view.php?id=1117 bug #1117])
** What steps should be used for testing fixes for these bugs?
*** Are all use cases covered in currently [http://www.slicer.org/slicerWiki/index.php/Modules:MainApplicationGUI-Documentation-3.6#Linking_Control_of_Slice_Viewers documented behavior]?
***Show hide reformat widget behavior should incorporate the Michal Depa/Steve Pieper modifcations for linked views with reformat widget.
*** What optimizations (delayed updates) are we expected in for situations like compare view?
**when linked views are in the same location and visible, there are artifacts in the 3d viewer.
* More flexibility in the names of the results of CLI's. It would be good to have the ability to incorporate:
**Source volume name
**Module name
**some important parameters

Notes:
* linked slice views: Jim will write up a wiki page describing the expected behaviour, Steve and Nicole will debug
* CLI names: Jim says "yes"
* CLI compilation with separated header files: Jim, Steve, Mark to look into this via webex

==2011-03-03==

Attendees: Steve, Nicole, Jim, Andrey, Suarez, Ron, Stephen A., Daniel H, Dominique B., Xioadong, Greg Sharp, Mark S, Dominik, Hans

Agenda:
* C++/C wrapping of modules
** Hans and Greg figured out what was going wrong. In BRAINS tools they did a trick to get around Bill's trick. It takes 8 minutes to build BRAINSfit, to break it down into smaller compilation units and test it using ITK testing framework. It has a thin wrapper around program to add comparator functions. BRAINSfit is a small 3 line wrapper around BRAINS fit primary that takes argc and argv and includes generated header file. You can't include CLP header file in both compilation units since functions are defined in header file. See error at link time. If you put the right ifdef compiling for slicer and module description is defined you can make it work. Hans would like to see the CLP broken apart into a compile until and a header unit. Jim: harder to build and link - but is done through macros. Could have a test before include CLP.h. Hans: wants to be able to include the .h file in every file. Change: now would have to write a programCLP.h and programCLP.cxx.
** definitely needs to be done in Slicer4, tbd in Slicer3 (Hans using Slicer3 in his class).
*** the add executable, add library lines macros would need to be touched, need to link new object file
*** before when build both a shared and a command line module it would have to rebuild all the itk stuff twice, Casey made the change to not require it
*** Steve: came up wrt diffusion modules because they're using vtk nrrd readers that don't know about shared memory pointers
*** Hans: was building itk files three times for exec, lib, testing
** Jim will take a look at what breaks when try to split it out, code generation is easy, the add_executable will be a bit tricky
** Hans: suggests adding the .cxx to the GenerateCLP macro that defines the .h, to use in the CMakeLists. Hans will do the changes to all the execution modules that need to be changed once the infrastructure is changed (or not).
** One BRAINSfit test failing: any multi threaded mutual information code is suspect to the bug that they found. Quick fix: restrict to one thread, huge slow down (2-4x). Bug is in the Mattes mutual information optimize metric (?) in the registration framework for certain number of threads (4,7, etc). Stephen A will look at it after March 9.
* Annotation module widget priority for ROI nodes
** Ron, Daniel agrees to put it as higher than the bidimensional widget
** ROI widget is in the critical path for the volume rendering module, as well as others
** Reformat widget to priority list? will require taking something out. Will is working on a new widget, wait on that. Andrey says the reformat widget will be useful in crop volume as well. General Slicer4 widget (was integrated in the 3d viewer in Slicer3). Nicole is taking on the integration of the vtk widgets.
* Contributing modules to Slicer4 (policy review)
** by default new modules should got to an external repository (NITRC, external module) and remain there for a while until whole module goes into Slicer4 if it's determined to be core functionality
** Slicer4 core to remail lean, but external modules to be first class citizens.
** Documentation requirements, building and testing on the factory machine every night.
** If a new module fails it shouldn't break Slicer4 building or running
** Timeline on extension mechanism in Slicer4?
*** Steve wanted to get the base nightly builds working first, but need to get the extensions built nightly asap
*** new feature in next release of cdash and cmake, ctest upload command to upload binaries, can get a list of uploads from dashboard
*** harvest the information from the cdash dashboard and make it available to the extension manager rather than have the extension manager communicate directly with the (sometimes slow) dashboards. Only let uploads come from factory machines. Use VMs to run test code.
*** Steve will be the gatekeeper to allow code to be built and tested on the factory for now
**** flag for if it gets redistributed, critical/non critical build
**** allow to build locally but submit to main slicer dashboard (no code upload), already supported via Experimental
** Greg: wants to be able to build a bug fixed version of an extension for an old release (limited support for it)

==2011-02-10==

Attendees: Jim, Mark, Tina, Nicole, Dan

Agenda:
*Updates from ITK meeting
*http://wiki.na-mic.org/Wiki/index.php/2011_Progress_Report#Scientific_Report_Timeline
**Heads up given to everyone that progress report is due on wiki by mid April

==2011-02-03==
Attendees: Suares, Dominik, Kilian, Dominique, Nicole, Daniel, Stephen, Tina, Xiaodong

Agenda:
*ITK meeting in progress in Boston. Steve and Jim attending it.
*http://wiki.slicer.org/slicerWiki/index.php/Documentation-4.0
**Automatic documentation generation options are being explored at Kitware. Stephen will report as progress is made.
*http://wiki.na-mic.org/Wiki/index.php/2011_Progress_Report#Scientific_Report_Timeline
**Heads up given to everyone that progress report is due on wiki by mid April

==2011-01-27==

No tcon today.

==2011-01-20==

Attendees: Xiaodong, Wendy, Tina, Mark, Nicole, Dominik, Daniel,

Agenda

* [http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6_Final_Issues Slicer 3.6.3]
* http://wiki.na-mic.org/Wiki/index.php/2011_Winter_Project_Week
* http://wiki.na-mic.org/Wiki/index.php/Resources#Active_Job_Openings

==2011-01-06==

Attendees: Steve, Stephen, Jim, Ron, Tina, Dan Marcus, Xiaodong

Agenda:

*News: DCMTK 3.6 was released today
* http://wiki.na-mic.org/Wiki/index.php/2011_Winter_Project_Week#Projects
* Command line module logic, supporting multiple argument for images in Slicer3/4
* Discussion of ITK support for large (greater than 4Gig) image volumes on win64. This will be further investigated at project week. It is only one of several issues to be researched as part of porting slicer3 and slicer4 to win64. Dave Partyka has a [[2011_Winter_Project_Week:64bit_Windows_Builds|project to work on this]] at project week.

File:PW-Boston-2011-group-photo-IMG 0013.JPG

2011-06-25T22:40:42Z

Lpfang:

2011 Summer Project Week

2011-06-25T22:39:52Z

Lpfang:

Back to [[Events]]

<gallery>
image:PW-MIT2011.png|Event logo
image:Panorama-summer-2011.png|[http://360.io/Afjepd Interactive Panorama of Project Week] (Works on chrome, maybe not on other browsers)
image:Pano2summer2011namic.jpg|[http://botview.appspot.com/viewer/pan0.swf?panoSrc=/media/4104002&FOV=52 Interactive Panorama of Project Week] (Needs flash)
image:PW-Boston-2011-Luping-Ron-IMG 0077.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0065.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0068.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0071.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0140.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0142.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0144.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0146.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0148.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0005.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0006.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0007.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0013.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0014.JPG|Monday afternoon :)
</gallery>

*'''Dates:''' June 20-24, 2011
*'''Location:''' MIT ([http://whereis.mit.edu/?go=34 Grier Rooms Location on MIT Campus Map])

==Preliminary Agenda==
==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 20
!style="width:18%" |Tuesday, June 21
!style="width:18%" |Wednesday, June 22
!style="width:18%" |Thursday, June 23
!style="width:18%" |Friday, June 24
|-
|
|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 Extension (Writing Tutorial) ([[media:AHM-2011-SlicerExtensions.pdf|pdf]], [[media:AHM-2011-SlicerExtensions.ppt|ppt]]) (Jean-Christophe Fillion-Robin)
'''10-11am''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] (Continued) <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>----------------------------------------<br>
'''11-12pm: <font color="#4020ff">Breakout Session:'''</font> [[2011 Summer Project Week Breakout Session Slicer4 Annotation|Slicer4 Annotations]] (Nicole Aucoin)<br>
[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''9am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Project Week Breakout Session: ITK|ITK]] (Luis Ibanez)
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''9am-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
<br>'''10:30am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:DiffusionMRI|DiffusionMRI]]<br>
<br>[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
<br>[[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: <font color="#503020">Ron Kikinis: Welcome</font>'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3:30-4:15pm''' Slicer4 Developers Guided Tour (Pieper) ([[media:2011 Summer-Slicer4.ppt|Slides]]). <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' How to get DBP Data <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Right)]]
|'''1-3pm: <font color="#4020ff">Breakout Session:'''</font><br> [http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer#Summer_2011_Project_Week_Breakout_Session Slicer4 MultiVolume Containers] (Nicole Aucoin)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
<br>----------------------------------------<br>
'''3-4pm:''' [[Summer_2011_Tutorial_Contest|Tutorial Contest Presentations]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''4-5pm:''' [[2011 Summer Project Week Breakout Session VTKCharts|VTK Charts]] (Marcus Hanwell) ([[media:NA-MIC-VTK-Charts-2011.pdf|Slides]])
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2011|Tutorial Contest Winner Announcement]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3-4pm: <font color="#4020ff">Breakout Session:'''</font><br>[[2011_Summer_Project_Week_Breakout_Session_EMRegistration|Inter-subject Registration for EM segmenter]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''1-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[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==

* Please make a link for your project to a new page based on the [[2011_Summer_Project_Week_Template| 2011 Summer Project Page Template]]

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

#[[2011_Summer_Project_Week_Segmentation_TBI|Segmentation of Longitudinal TBI data]] (Bo Wang, Jack Van Horn, Andrei Irimia, Micah Chambers, Marcel Prastawa, Guido Gerig)
#[[Multimodality Image Registration for TBI]] (Yifei Lou, Danielle Pace, Jack Van Horn, Micah Chambers)
#[[2011_Summer_Project_Week_White_Matter_Laterality|White Matter Laterality in Python/Slicer4]] (Lauren O'Donnell)
#[[2011_Summer_Project_Week_Intraoperative_Brain_Shift_Monitor|Intraoperative Brain Shift Monitor]] (Jason White, Alex Golby, Steve Pieper, Junichi Tokuda)
#[[2011_Summer_Project_Week_GBM_Masks|Obtaining and Evaluation of Glioblastoma Multiforme (GBM) Segmentation Masks]] (Jan Egger,Tina Kapur, Andriy Fedorov, Rivka Colen, Ron Kikinis, Alex Golby, Christopher Nimsky)
#[[2011_Summer_Project_Week_NerveSeg|Segmentation of Nerve and Nerve Ganglia in the Spine]] (Adrian Dalca, Giovanna Danagoulian, Ron Kikinis, Ehud Schmidt, Polina Golland)
#[[2011_Summer_Project_Week_Spine_Segmentation_And_Osteoporosis_Screening_CT|Spine Segmentation & Osteoporosis Screening In CT Imaging Studies]] (Anthony Blumfield)
#[[2011_Summer_Project_Week_Quantitative_Magnetic_Susceptibility_Mapping|Quantitative Magnetic Susceptibility Mapping ]] (Clare Poynton)

'''Radiation Therapy'''
#[[2011_Summer Project Week_Non-rigid_inter-patient_registration_of_bone_masks_derived_from_CT_for_Head_and_Neck_Cancer_Radiation_Therapy|Non-rigid, inter-patient registration of bone masks derived from CT for Head and Neck Cancer Radiation Therapy]] (Ivan Kolesov, Yi Gao, Gregory Sharp, Xiaodong Tao, Nadya Shusharina, Allen Tannenbaum)
#[[2011_Summer_Project_Week_Contouring_Gyne_Structures|Contouring of Anatomy Structures like Tumor, Bladder, Rectum and Sigmoid for Gynecological Brachytherapy]] (Tina Kapur, Akila Viswanathan, Jan Egger)
#[[2011_Summer_Project_Week_Slicer_DICOM_RT_Brachytherapy|Visualization of DICOM RT Planning Contours and Dose Distributions for Prostate and Gynecologic Brachytherapy in Slicer]] (Firdaus Janoos, Jan Egger, Greg Sharp, Andriy Fedorov, Tina Kapur)
#[[2011_Summer_Project__Week_DVH|Dose volume histograms in Slicer]] (Greg Sharp, Nadya Shusharina, Steve Pieper, Csaba Pinter, Tina Kapur)
#[[2011_Summer_Project__Week_DICOM_RT|Synthetic images, vector fields, RT structures and RT doses in Slicer and ITK]]. (Nadya Shusharina, Greg Sharp, Luis Ibanez, Steve Pieper)

'''Huntington's Disease'''
#[[2011_Summer_Project_Week_Iowa_Huntington's_disease_data_sharing | Iowa Huntington's Disease Data Sharing]] (Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week_normal_consistency_particles|Normal consistency in particle correspondence computation using great circles in principal spheres - Huntington's Disease]], (Beatriz Paniagua, Martin Styner, Sungkyu Jung, Mark Scully)
#[[2011_Summer_Project__Week_Shape_Analysis_UNC |SPHARM & particles shape analysis - Huntington's Disease]] (Lucile Bompard, Clement Vachet, Beatriz Paniagua, Martin Styner
#[[2011_Summer_Project_Week_long_shape_regression|Longitudinal Shape Regression - Huntington's Disease]] (James Fishbaugh, Marcel Prastawa, Guido Gerig, Hans Johnson)
#[[2011_Summer_Project_Week_DTIPrep|DTIPrep - "Study-specific Protocol" based automatic DWI/DTI quality control and preparation]] - Huntington's Disease (Mahshid Farzinfar, Clement Vachet, Joy Matsui, Martin Styner)
#[[2011_Summer_Project_Week_DTI_PairWise_Registration|DTI pair-wise registration module]] - Huntington's Disease (Clement Vachet, Joy Matsui, Mark Scully, Martin Styner)
#[[2011_Summer_Project_Week_DTI analysis_for_Huntington's_disease | DTI analysis for Huntington's disease]] (Gopal Veni, Ross Whitaker)

'''Atrial Fibrillation'''
#[[2011_Summer_Project_Week_RSS_for_AFib_Ablation|Robust Statistical Segmentation (RSS) for the Atrial Fibrillation Ablation Therapy]] (Yi Gao, Kedar Patwardhan, Steve Pieper, Wassim Haddad, and Allen Tannenbaum, Rob MacLeod, Josh Blauer, and Josh Cates)
#[[2011_Summer_Project_Week_Watersheds|Interactive Watersheds Segmentation Module for Slicer for Atrial Fibrillation and HN Cancer]] (Josh Cates, Ross Whitaker, Steve Pieper, Jim Miller, Nadya)

'''Device Integration with Slicer and General Image Guided Therapy'''
#[[2011_Summer_Project__Week_Wireless_Joystick|Wireless joystick controlling medical devices and software (e.g. Slicer4) in the operating room]] (Szymon Kostrzewski)
#[[2011_Summer_Project__Week_Live_Tracked_Ultrasound|Live Tracked Ultrasound with Slicer4 (Tamas Heffter)]]
#[http://wiki.na-mic.org/Wiki/index.php/Survey_stealthlink_openigtlink Surveying research teams interested in Open IGT Link support of Stealth Station (Nobuhiko Hata, Ron Kikinis)]
#[[2011_Summer_Project_Week_Needle_Detection_to_Control_Scanner_for_Prostate_Biopsy | Needle Detection to Control Scanner for Prostate Biopsy ]] (Atsushi Yamada, Loïc Cadour, Junichi Tokuda and Nobuhiko Hata)
#[[2011_Summer_Project_Week_Segementation_Reconstruction_Pericardial_Sac]] (Mohsen Mahvash, Noby Hata, Ron Kikinis)
#[[2011_Summer_Project_Week_4DUltrasound_HybridProbe_OsteoPlan|4D Ultrasound / Hybrid Probe / OsteoPlan]] (Laurent Chauvin, Noby Hata)
#[[2011_Summer_Project_Week_AMIGO|AMIGO]] (Mallika Winsor, Vivian He, Dan Kacher, Tina Kapur)
#[[2011_Summer_Project_Week_Patient_Mounted_Robot|Patient-mounted Robot Control using OpenIGTLink]] (Conor James Walsh, Maryam Shokri, Faye Wu)
#[[2011_Summer_project_Week_Open_Source_Electromagnetic_Trackers_using_OpenIGTLink|Open-source Electromagnetic Trackers using OpenIGTLink]] (Peter Traneus Anderson)

'''General Segmentation'''
#[[2011_Summer_Project_Week_Integrate_BRAINSCut_into_Slicer3]](Regina Kim, ... )
#[[2011_Summer_Project_Week_EMSegmentation_in_3D_Slicer4|EM Segmentation in 3D Slicer 4]] (Daniel Haehn, Dominique Belhachemi, Kilian Pohl)
#[[2011_Summer_Project_Week_Customizing_EMSegmenter_pipelines_for_brain_lesions | Customizing EMSegmenter pipelines for brain lesions]] (Dominique Belhachemi, Alexander Zaitsev, Kilian Pohl)
#[[2011_Summer_Project_Week_Plastimatch_for_EMSegmenter | Integrating Plastimatch into the EMSegmenter]] (Dominique Belhachemi, Kilian Pohl, Greg Sharp, Daniel Haehn)
#[[2011_Summer_Project_Week_Slicer_Extension_for_GLISTR | Slicer extension for GLiome Image SegmenTation and Registration (GLISTR)]] (Andreas Schuh, Daniel Haehn, Kilian Pohl)

'''General Registration'''
#[[2011_Summer_Project_Week__BRAINSFit_new_features_integration|Integrate new features into BRAINSFit]] (Andrey Fedorov, Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week__LANDWARP_integration|Integration of LANDWARP into interactive registration module]] (Andrey Fedorov, Greg Sharp, Nadya Shusharina)
#[[2011_Summer_Project_Week_Registration_of_mouse_brains|Registration of mouse brains]] (Francois Budin, Ipek Oguz, Martin Styner, Dominik Meier)
#[[NonRigidRegistrationThatAccommodatesResection|Demons Based Non-Rigid Registration that Accommodates Resection in 3D Slicer]] (Petter Risholm, Jim Miller, Sandy Wells)
#[[2011_Summer_Project_Week_SlidingOrganRegistrationFED|Integrate Fast Explicit Diffusion into Sliding Organ Registration module]] (Danielle Pace)
#[[2011_Summer_Project_Week_Image_Manifold_Learning_with_Spectral_Embedding_and_Laplacian_Eigenmaps|Image Manifold Learning with Spectral Embedding and Laplacian Eigenmaps]] (Ramesh Sridharan, Polina Golland)

'''General Diffusion Tractography'''
#[[2011_Summer_Project_Week_WMGeometry_Slicer4 | White matter geometry measures in Slicer 4]] (Peter Savadjiev)
#[[2011_Summer_Project_Week_re-parameterize_fiber|Re-parametrize fiber tracts for fiber statistics analysis]] (Yundi Shi, Clement Vachet, Benjamin Yvernault, Anuja Sharma, Martin Styner)
#[[2011_Summer_Project_Week_ODF_though_Fiber_Counting | ODF computation through fiber counting]] (Yinpeng Li, Ipek Oguz, Martin Styner)
#[[2011_Summer_Project_Week_Nifti_Support_for_Diffusion_Tensor_Images|Nifti Support for Diffusion Tensor Images]] (Demian)
#[[2011_Summer_Project_Week_Finishing_details_on_the_workflows_DICOM_full_brain_tractography_peritumoral|Finishing details on the workflows: DICOM->Full brain tractography / peritumoral]] (Demian)
#[[Summer_project_week_2011_Finsler_Streamlines|Adding streamlined tractography to the Finsler front propagation tractography toolkit]] (Antonio Tristán-Vega)
#[[2011_Summer_Project_Week_Slicer4_Tractography_Interaction_and_Display|Tractography Bundle/Cluster Interaction and Display in Slicer4]] (Isaiah Norton, Lauren O'Donnell, Demian Wasserman)
#[[2011_Summer_Project_Week_DTI_Volumetric_Tractography | DTI Volumetric Tractography]] (Steve Callahan, Mark Scully, Jim Miller)
#[[2011_Summer_Project_Week_DWI_Atlas | Slicer module for building an average population DWI Atlas]] (Ryan Eckbo, Sylvain Bouix)
#[[2011_Summer_Project_Week_DTI_Volumetric_Segmentation_for_Group_studies | DTI Volumetric Segmentation for Group studies]] (Gopal Veni, Ross Whitaker)

'''Vessels'''
#[[2011_Summer_Project_Week_SlicerVmtk4|The Vascular Modeling Toolkit in 3D Slicer 4]] (Daniel Haehn, Luca Antiga, Steve Pieper, Kilian Pohl, Ron Kikinis)
#[[2011_Summer_Project__Week_Stenosis_Detector|Stenosis Detector in 3D Slicer 4]] (Suares Tamekue, Daniel Haehn, Luca Antiga, Ron Kikinis)

'''Infrastructure'''
#[[2011_Summer_Project_Week_Annotation_Module|Annotation Module in Slicer4]] (Nicole Aucoin, Daniel Haehn)
#[[2011_Summer_Project_Week_RECIST|RECIST Slicer4 module]] (Nicole Aucoin)
#[[2011_Summer_Project_Week_Dicom2Nrrd|DicomToNrrdConverter refactoring]] ( Xiaodong Tao, Mark Scully)
#[[Summer_project_week_2011_Workflows_SOA|Workflows and Service Oriented Architecture Modules for Slicer4 as Extensions]] (Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis)
#[[2011_Summer_Project__Week_DICOM_Networking|DICOM Networking interface for Slicer4]] (Steve Pieper, Nicole Aucoin, Noby Hata)
#[[2011_Summer_Project_Week_Automated_GUI_Testing| Automated GUI Testing (Sonia Pujol, Steve Pieper, Dave Partyka, Jean-Christophe Fillion-Robin, Xiaodong Tao)]]
#[[2011_Summer_Project_Week_FetchMI:_Slicer_integration_with_XNAT |FetchMI: Slicer integration with XNAT 1.5]] (Misha Milchenko, Wendy Plesniak)
#[[2011_Summer_Project_Week_Internationalization_of_Slicer|Internationalization of Slicer]] (Luping Fang, Steve Pieper, Daniel Haehn, Suares Tamekue, Jean-Christophe Fillion-Robin, Julien Finet, Yiming Ge, Ping Cao)

==Background==

We are pleased to announce the 13th PROJECT WEEK of hands-on research and development activity for applications in Image-Guided Therapy, Neuroscience, 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 28th 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], and [http://www.cimit.org CIMIT]. 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 20-24, 2011
*'''Location:''' MIT. [[Meeting_Locations:MIT_Grier_A_%26B|Grier Rooms A & B: 34-401A & 34-401B]].
*'''REGISTRATION:''' Please register [http://guest.cvent.com/d/sdqy0l/4W here]. Payment must be made by credit card.
*'''Registration Fee:''' $260 (covers the cost of breakfast, lunch and coffee breaks for the week).
*'''Hotel:''' Boston Marriott Cambridge, Two Cambridge Center, 50 Broadway, Cambridge, MA 02142. Group rate is $199/night plus tax. Book [http://www.marriott.com/hotels/travel/boscb?groupCode=jrbjrba&app=resvlink&fromDate=6/19/11&toDate=6/24/11 here] or call 1-617-494-6600 and mention that you are booking in the MIT Room Block. '''All reservations must be made by May 29, 2011 to receive the discounted rate.'''

== 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 28, 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 12, all participants to add a one line title of their project to #Projects
#By 3pm ET on Thursday June 9, 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 16: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Zack)
## 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.)
## 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. (Zack)
# 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.
## Projects to develop extension modules should work with the [http://viewvc.slicer.org/viewcvs.cgi/branches/Slicer-3-6/#dirlist Slicer-3-6 branch] (new code should not be checked into the branch).
## Projects to modify core behavior of slicer should be done on the [http://viewvc.slicer.org/viewcvs.cgi/trunk/ trunk].

==Registrants==

Do not add your name to this list- it is maintained by the organizers based on your paid registration (see Logistics for link)
# Peter Anderson, Retired
# Nicole Aucoin, Brigham and Women's Hospital
# Dominique Belhachemi, University of Pennsylvania
# Anthony Blumfiled, Radnostics
# Lucile Bompard, UNC NIRAL
# Sylvain Bouix, Brigham and Women's Hospital
# Francois Budin, UNC NIRAL
# Steve Callahan, University of Utah
# Joshua Cates, University of Utah
# Micah Chambers, Laboratory of NeuroImaging
# Laurent Chauvin, Brigham and Women's Hospital
# Rivka Colen, Brigham and Women's Hospital
# Nikos Chrisochoides, Old Dominion University
# Adrian Dalca, Massachusetts Institute of Technology
# Manasi Datar, University of Utah
# Colin Davey
# Ryan Eckbo, Brigham and Women's Hospital
# Jan Egger, University Hospital of Marburg
# Luping Fang, Zhejiang University of Technology, China
# Mahshid Farzinfar, University of North Carolina at Chapel Hill
# Andriy Fedorov, Brigham and Women's Hospital
# Jean-Christophe Fillion-Robin, Kitware, Inc.
# Julien Finet, Kitware, Inc.
# James Fishbaugh, University of Utah
# Yi Gao, Georgia Institute of Technology
# Greg Gardner, University of Utah
# Ronen Globinsky, Yale University
# Randy Gollub, MGH
# Maged Goubran, Robarts Research Institute
# Vivian He, Brigham and Women's Hospital
# Daniel Haehn, University of Pennsylvania
# Mike Halle, Brigham and Women's Hospital
# Marcus Hanwell, Kitware, Inc.
# Noby Hata, Brigham and Women's Hospital
#Katie Hayes, MGH
# Tamas Heffter, Queen's University
# Nicholas Herlambang, AZE, Ltd.
# Firdaus Janoos, Brigham and Women's Hospital
# Luis Ibanez, Kitware, Inc.
# Andrei Irimia, University of California, Los Angeles
# Hans Johnson, University of Iowa
# Ilknur Kabul, Kitware, Inc.
# Tina Kapur, Brigham and Women's Hospital
# Peter Karasev, Georgia Institute of Technology
# Ron Kikinis, Brigham and Women's Hospital
# Regina Kim, University of Iowa
# Ivan Kolesov, Georgia Institute of Technology
# Szymon Kostrzewski, Ecole Polytechnique Federale de Lausanne EPFL
# Dillon Lee, University of Utah
# Yinpeng Li, UNC-NIRAL
# Yifei Lou, Georgia Institute of Technology
# Mohsen Mahvash, Harvard Medical School (BWH and VA)
# Nikos Makris, Massachusetts General Hospital
# Katie Mastrogiacomo, Brigham and Women's Hospital
# Joy Matsui, University of Iowa
# Dominik Meier, Brigham and Women's Hospital
# Mikhail Milchenko, Washington University in St. Louis
# James Miller, GE Research
# Zach Mullen, Kitware, Inc.
# Isaiah Norton, Brigham and Women's Hospital
# Lauren O'Donnell, Brigham and Women's Hospital
# Danielle Pace, Kitware, Inc.
# Beatriz Paniagua, University of North Carolina at Chapel Hill
# Xenophon Papademetris, Yale University
# Kedar Patwardhan, GE Global Research
# Steve Pieper, Isomics, Inc.
# Csaba Pinter, Queen's University
# Wendy Plesniak, Brigham and Women's Hospital
#Clare Poynton, MIT
# Kilian Pohl, University of Pennsylvania
# Marcel Prastawa, University of Utah
# Sonia Pujol, Brigham and Women's Hospital
# Martin Rajchl, Robarts Research Institute
# Ramesh Sridharan, Massachusetts Institute of Technology
# Petter Risholm, Brigham and Women's Hospital
# Peter Savadjiev, Brigham and Women's Hospital
# Will Schroeder, Kitware, Inc.
# Andreas Schuh, University of Pennsylvania
# Mark Scully, University of Iowa
# Gregory Sharp, Massachusetts General Hospital
# Junichi Tokuda, Brigham and Women's Hospital
# Yundi Shi, University of North Carolina at Chapel Hill
# Matthew Toews, Brigham and Women's Hospital
# Nadya Shusharina, Massachusetts General Hospital
# Hao Su, Worcester Polytechnic Institute
# Suares Tamekue, Brigham and Women's Hospital
# Xiaodong Tao, GE Research
# Clement Vachet, UNC Chapel Hill
# Antonio Vega, Brigham and Women's Hospital
# Gopal Veni, University of Utah
# Bo Wang, University of Utah
# Andrew Wasam, CoSMo Software Inc.
# Demian Wassermann, Brigham and Women's Hospital
# Sandy Wells, Brigham and Women's Hospital
# Jason White, Brigham and Women's Hospital
# Mallika Winsor, Brigham and Women's Hospital
# Atsushi Yamada, Brigham and Women's Hospital
# Alexander Yarmarkovich, Isomics, Inc.
# Alexander Zaitsev, Brigham and Women's Hospital
# Ming Zhao, Sun Yat-Sen University Cancer Center, GuangZhou, China

2011 Summer Project Week

2011-06-25T22:39:05Z

Lpfang:

Back to [[Events]]

<gallery>
image:PW-MIT2011.png|Event logo
image:Panorama-summer-2011.png|[http://360.io/Afjepd Interactive Panorama of Project Week] (Works on chrome, maybe not on other browsers)
image:Pano2summer2011namic.jpg|[http://botview.appspot.com/viewer/pan0.swf?panoSrc=/media/4104002&FOV=52 Interactive Panorama of Project Week] (Needs flash)
image:PW-Boston-2011-Luping-Ron-IMG 0077.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0065.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0068.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0071.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0140.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0142.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0144.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0146.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0148.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0005.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0006.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0007.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0014.JPG|Monday afternoon :)
</gallery>

*'''Dates:''' June 20-24, 2011
*'''Location:''' MIT ([http://whereis.mit.edu/?go=34 Grier Rooms Location on MIT Campus Map])

==Preliminary Agenda==
==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 20
!style="width:18%" |Tuesday, June 21
!style="width:18%" |Wednesday, June 22
!style="width:18%" |Thursday, June 23
!style="width:18%" |Friday, June 24
|-
|
|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 Extension (Writing Tutorial) ([[media:AHM-2011-SlicerExtensions.pdf|pdf]], [[media:AHM-2011-SlicerExtensions.ppt|ppt]]) (Jean-Christophe Fillion-Robin)
'''10-11am''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] (Continued) <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>----------------------------------------<br>
'''11-12pm: <font color="#4020ff">Breakout Session:'''</font> [[2011 Summer Project Week Breakout Session Slicer4 Annotation|Slicer4 Annotations]] (Nicole Aucoin)<br>
[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''9am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Project Week Breakout Session: ITK|ITK]] (Luis Ibanez)
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''9am-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
<br>'''10:30am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:DiffusionMRI|DiffusionMRI]]<br>
<br>[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
<br>[[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: <font color="#503020">Ron Kikinis: Welcome</font>'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3:30-4:15pm''' Slicer4 Developers Guided Tour (Pieper) ([[media:2011 Summer-Slicer4.ppt|Slides]]). <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' How to get DBP Data <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Right)]]
|'''1-3pm: <font color="#4020ff">Breakout Session:'''</font><br> [http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer#Summer_2011_Project_Week_Breakout_Session Slicer4 MultiVolume Containers] (Nicole Aucoin)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
<br>----------------------------------------<br>
'''3-4pm:''' [[Summer_2011_Tutorial_Contest|Tutorial Contest Presentations]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''4-5pm:''' [[2011 Summer Project Week Breakout Session VTKCharts|VTK Charts]] (Marcus Hanwell) ([[media:NA-MIC-VTK-Charts-2011.pdf|Slides]])
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2011|Tutorial Contest Winner Announcement]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3-4pm: <font color="#4020ff">Breakout Session:'''</font><br>[[2011_Summer_Project_Week_Breakout_Session_EMRegistration|Inter-subject Registration for EM segmenter]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''1-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[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==

* Please make a link for your project to a new page based on the [[2011_Summer_Project_Week_Template| 2011 Summer Project Page Template]]

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

#[[2011_Summer_Project_Week_Segmentation_TBI|Segmentation of Longitudinal TBI data]] (Bo Wang, Jack Van Horn, Andrei Irimia, Micah Chambers, Marcel Prastawa, Guido Gerig)
#[[Multimodality Image Registration for TBI]] (Yifei Lou, Danielle Pace, Jack Van Horn, Micah Chambers)
#[[2011_Summer_Project_Week_White_Matter_Laterality|White Matter Laterality in Python/Slicer4]] (Lauren O'Donnell)
#[[2011_Summer_Project_Week_Intraoperative_Brain_Shift_Monitor|Intraoperative Brain Shift Monitor]] (Jason White, Alex Golby, Steve Pieper, Junichi Tokuda)
#[[2011_Summer_Project_Week_GBM_Masks|Obtaining and Evaluation of Glioblastoma Multiforme (GBM) Segmentation Masks]] (Jan Egger,Tina Kapur, Andriy Fedorov, Rivka Colen, Ron Kikinis, Alex Golby, Christopher Nimsky)
#[[2011_Summer_Project_Week_NerveSeg|Segmentation of Nerve and Nerve Ganglia in the Spine]] (Adrian Dalca, Giovanna Danagoulian, Ron Kikinis, Ehud Schmidt, Polina Golland)
#[[2011_Summer_Project_Week_Spine_Segmentation_And_Osteoporosis_Screening_CT|Spine Segmentation & Osteoporosis Screening In CT Imaging Studies]] (Anthony Blumfield)
#[[2011_Summer_Project_Week_Quantitative_Magnetic_Susceptibility_Mapping|Quantitative Magnetic Susceptibility Mapping ]] (Clare Poynton)

'''Radiation Therapy'''
#[[2011_Summer Project Week_Non-rigid_inter-patient_registration_of_bone_masks_derived_from_CT_for_Head_and_Neck_Cancer_Radiation_Therapy|Non-rigid, inter-patient registration of bone masks derived from CT for Head and Neck Cancer Radiation Therapy]] (Ivan Kolesov, Yi Gao, Gregory Sharp, Xiaodong Tao, Nadya Shusharina, Allen Tannenbaum)
#[[2011_Summer_Project_Week_Contouring_Gyne_Structures|Contouring of Anatomy Structures like Tumor, Bladder, Rectum and Sigmoid for Gynecological Brachytherapy]] (Tina Kapur, Akila Viswanathan, Jan Egger)
#[[2011_Summer_Project_Week_Slicer_DICOM_RT_Brachytherapy|Visualization of DICOM RT Planning Contours and Dose Distributions for Prostate and Gynecologic Brachytherapy in Slicer]] (Firdaus Janoos, Jan Egger, Greg Sharp, Andriy Fedorov, Tina Kapur)
#[[2011_Summer_Project__Week_DVH|Dose volume histograms in Slicer]] (Greg Sharp, Nadya Shusharina, Steve Pieper, Csaba Pinter, Tina Kapur)
#[[2011_Summer_Project__Week_DICOM_RT|Synthetic images, vector fields, RT structures and RT doses in Slicer and ITK]]. (Nadya Shusharina, Greg Sharp, Luis Ibanez, Steve Pieper)

'''Huntington's Disease'''
#[[2011_Summer_Project_Week_Iowa_Huntington's_disease_data_sharing | Iowa Huntington's Disease Data Sharing]] (Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week_normal_consistency_particles|Normal consistency in particle correspondence computation using great circles in principal spheres - Huntington's Disease]], (Beatriz Paniagua, Martin Styner, Sungkyu Jung, Mark Scully)
#[[2011_Summer_Project__Week_Shape_Analysis_UNC |SPHARM & particles shape analysis - Huntington's Disease]] (Lucile Bompard, Clement Vachet, Beatriz Paniagua, Martin Styner
#[[2011_Summer_Project_Week_long_shape_regression|Longitudinal Shape Regression - Huntington's Disease]] (James Fishbaugh, Marcel Prastawa, Guido Gerig, Hans Johnson)
#[[2011_Summer_Project_Week_DTIPrep|DTIPrep - "Study-specific Protocol" based automatic DWI/DTI quality control and preparation]] - Huntington's Disease (Mahshid Farzinfar, Clement Vachet, Joy Matsui, Martin Styner)
#[[2011_Summer_Project_Week_DTI_PairWise_Registration|DTI pair-wise registration module]] - Huntington's Disease (Clement Vachet, Joy Matsui, Mark Scully, Martin Styner)
#[[2011_Summer_Project_Week_DTI analysis_for_Huntington's_disease | DTI analysis for Huntington's disease]] (Gopal Veni, Ross Whitaker)

'''Atrial Fibrillation'''
#[[2011_Summer_Project_Week_RSS_for_AFib_Ablation|Robust Statistical Segmentation (RSS) for the Atrial Fibrillation Ablation Therapy]] (Yi Gao, Kedar Patwardhan, Steve Pieper, Wassim Haddad, and Allen Tannenbaum, Rob MacLeod, Josh Blauer, and Josh Cates)
#[[2011_Summer_Project_Week_Watersheds|Interactive Watersheds Segmentation Module for Slicer for Atrial Fibrillation and HN Cancer]] (Josh Cates, Ross Whitaker, Steve Pieper, Jim Miller, Nadya)

'''Device Integration with Slicer and General Image Guided Therapy'''
#[[2011_Summer_Project__Week_Wireless_Joystick|Wireless joystick controlling medical devices and software (e.g. Slicer4) in the operating room]] (Szymon Kostrzewski)
#[[2011_Summer_Project__Week_Live_Tracked_Ultrasound|Live Tracked Ultrasound with Slicer4 (Tamas Heffter)]]
#[http://wiki.na-mic.org/Wiki/index.php/Survey_stealthlink_openigtlink Surveying research teams interested in Open IGT Link support of Stealth Station (Nobuhiko Hata, Ron Kikinis)]
#[[2011_Summer_Project_Week_Needle_Detection_to_Control_Scanner_for_Prostate_Biopsy | Needle Detection to Control Scanner for Prostate Biopsy ]] (Atsushi Yamada, Loïc Cadour, Junichi Tokuda and Nobuhiko Hata)
#[[2011_Summer_Project_Week_Segementation_Reconstruction_Pericardial_Sac]] (Mohsen Mahvash, Noby Hata, Ron Kikinis)
#[[2011_Summer_Project_Week_4DUltrasound_HybridProbe_OsteoPlan|4D Ultrasound / Hybrid Probe / OsteoPlan]] (Laurent Chauvin, Noby Hata)
#[[2011_Summer_Project_Week_AMIGO|AMIGO]] (Mallika Winsor, Vivian He, Dan Kacher, Tina Kapur)
#[[2011_Summer_Project_Week_Patient_Mounted_Robot|Patient-mounted Robot Control using OpenIGTLink]] (Conor James Walsh, Maryam Shokri, Faye Wu)
#[[2011_Summer_project_Week_Open_Source_Electromagnetic_Trackers_using_OpenIGTLink|Open-source Electromagnetic Trackers using OpenIGTLink]] (Peter Traneus Anderson)

'''General Segmentation'''
#[[2011_Summer_Project_Week_Integrate_BRAINSCut_into_Slicer3]](Regina Kim, ... )
#[[2011_Summer_Project_Week_EMSegmentation_in_3D_Slicer4|EM Segmentation in 3D Slicer 4]] (Daniel Haehn, Dominique Belhachemi, Kilian Pohl)
#[[2011_Summer_Project_Week_Customizing_EMSegmenter_pipelines_for_brain_lesions | Customizing EMSegmenter pipelines for brain lesions]] (Dominique Belhachemi, Alexander Zaitsev, Kilian Pohl)
#[[2011_Summer_Project_Week_Plastimatch_for_EMSegmenter | Integrating Plastimatch into the EMSegmenter]] (Dominique Belhachemi, Kilian Pohl, Greg Sharp, Daniel Haehn)
#[[2011_Summer_Project_Week_Slicer_Extension_for_GLISTR | Slicer extension for GLiome Image SegmenTation and Registration (GLISTR)]] (Andreas Schuh, Daniel Haehn, Kilian Pohl)

'''General Registration'''
#[[2011_Summer_Project_Week__BRAINSFit_new_features_integration|Integrate new features into BRAINSFit]] (Andrey Fedorov, Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week__LANDWARP_integration|Integration of LANDWARP into interactive registration module]] (Andrey Fedorov, Greg Sharp, Nadya Shusharina)
#[[2011_Summer_Project_Week_Registration_of_mouse_brains|Registration of mouse brains]] (Francois Budin, Ipek Oguz, Martin Styner, Dominik Meier)
#[[NonRigidRegistrationThatAccommodatesResection|Demons Based Non-Rigid Registration that Accommodates Resection in 3D Slicer]] (Petter Risholm, Jim Miller, Sandy Wells)
#[[2011_Summer_Project_Week_SlidingOrganRegistrationFED|Integrate Fast Explicit Diffusion into Sliding Organ Registration module]] (Danielle Pace)
#[[2011_Summer_Project_Week_Image_Manifold_Learning_with_Spectral_Embedding_and_Laplacian_Eigenmaps|Image Manifold Learning with Spectral Embedding and Laplacian Eigenmaps]] (Ramesh Sridharan, Polina Golland)

'''General Diffusion Tractography'''
#[[2011_Summer_Project_Week_WMGeometry_Slicer4 | White matter geometry measures in Slicer 4]] (Peter Savadjiev)
#[[2011_Summer_Project_Week_re-parameterize_fiber|Re-parametrize fiber tracts for fiber statistics analysis]] (Yundi Shi, Clement Vachet, Benjamin Yvernault, Anuja Sharma, Martin Styner)
#[[2011_Summer_Project_Week_ODF_though_Fiber_Counting | ODF computation through fiber counting]] (Yinpeng Li, Ipek Oguz, Martin Styner)
#[[2011_Summer_Project_Week_Nifti_Support_for_Diffusion_Tensor_Images|Nifti Support for Diffusion Tensor Images]] (Demian)
#[[2011_Summer_Project_Week_Finishing_details_on_the_workflows_DICOM_full_brain_tractography_peritumoral|Finishing details on the workflows: DICOM->Full brain tractography / peritumoral]] (Demian)
#[[Summer_project_week_2011_Finsler_Streamlines|Adding streamlined tractography to the Finsler front propagation tractography toolkit]] (Antonio Tristán-Vega)
#[[2011_Summer_Project_Week_Slicer4_Tractography_Interaction_and_Display|Tractography Bundle/Cluster Interaction and Display in Slicer4]] (Isaiah Norton, Lauren O'Donnell, Demian Wasserman)
#[[2011_Summer_Project_Week_DTI_Volumetric_Tractography | DTI Volumetric Tractography]] (Steve Callahan, Mark Scully, Jim Miller)
#[[2011_Summer_Project_Week_DWI_Atlas | Slicer module for building an average population DWI Atlas]] (Ryan Eckbo, Sylvain Bouix)
#[[2011_Summer_Project_Week_DTI_Volumetric_Segmentation_for_Group_studies | DTI Volumetric Segmentation for Group studies]] (Gopal Veni, Ross Whitaker)

'''Vessels'''
#[[2011_Summer_Project_Week_SlicerVmtk4|The Vascular Modeling Toolkit in 3D Slicer 4]] (Daniel Haehn, Luca Antiga, Steve Pieper, Kilian Pohl, Ron Kikinis)
#[[2011_Summer_Project__Week_Stenosis_Detector|Stenosis Detector in 3D Slicer 4]] (Suares Tamekue, Daniel Haehn, Luca Antiga, Ron Kikinis)

'''Infrastructure'''
#[[2011_Summer_Project_Week_Annotation_Module|Annotation Module in Slicer4]] (Nicole Aucoin, Daniel Haehn)
#[[2011_Summer_Project_Week_RECIST|RECIST Slicer4 module]] (Nicole Aucoin)
#[[2011_Summer_Project_Week_Dicom2Nrrd|DicomToNrrdConverter refactoring]] ( Xiaodong Tao, Mark Scully)
#[[Summer_project_week_2011_Workflows_SOA|Workflows and Service Oriented Architecture Modules for Slicer4 as Extensions]] (Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis)
#[[2011_Summer_Project__Week_DICOM_Networking|DICOM Networking interface for Slicer4]] (Steve Pieper, Nicole Aucoin, Noby Hata)
#[[2011_Summer_Project_Week_Automated_GUI_Testing| Automated GUI Testing (Sonia Pujol, Steve Pieper, Dave Partyka, Jean-Christophe Fillion-Robin, Xiaodong Tao)]]
#[[2011_Summer_Project_Week_FetchMI:_Slicer_integration_with_XNAT |FetchMI: Slicer integration with XNAT 1.5]] (Misha Milchenko, Wendy Plesniak)
#[[2011_Summer_Project_Week_Internationalization_of_Slicer|Internationalization of Slicer]] (Luping Fang, Steve Pieper, Daniel Haehn, Suares Tamekue, Jean-Christophe Fillion-Robin, Julien Finet, Yiming Ge, Ping Cao)

==Background==

We are pleased to announce the 13th PROJECT WEEK of hands-on research and development activity for applications in Image-Guided Therapy, Neuroscience, 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 28th 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], and [http://www.cimit.org CIMIT]. 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 20-24, 2011
*'''Location:''' MIT. [[Meeting_Locations:MIT_Grier_A_%26B|Grier Rooms A & B: 34-401A & 34-401B]].
*'''REGISTRATION:''' Please register [http://guest.cvent.com/d/sdqy0l/4W here]. Payment must be made by credit card.
*'''Registration Fee:''' $260 (covers the cost of breakfast, lunch and coffee breaks for the week).
*'''Hotel:''' Boston Marriott Cambridge, Two Cambridge Center, 50 Broadway, Cambridge, MA 02142. Group rate is $199/night plus tax. Book [http://www.marriott.com/hotels/travel/boscb?groupCode=jrbjrba&app=resvlink&fromDate=6/19/11&toDate=6/24/11 here] or call 1-617-494-6600 and mention that you are booking in the MIT Room Block. '''All reservations must be made by May 29, 2011 to receive the discounted rate.'''

== 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 28, 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 12, all participants to add a one line title of their project to #Projects
#By 3pm ET on Thursday June 9, 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 16: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Zack)
## 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.)
## 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. (Zack)
# 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.
## Projects to develop extension modules should work with the [http://viewvc.slicer.org/viewcvs.cgi/branches/Slicer-3-6/#dirlist Slicer-3-6 branch] (new code should not be checked into the branch).
## Projects to modify core behavior of slicer should be done on the [http://viewvc.slicer.org/viewcvs.cgi/trunk/ trunk].

==Registrants==

Do not add your name to this list- it is maintained by the organizers based on your paid registration (see Logistics for link)
# Peter Anderson, Retired
# Nicole Aucoin, Brigham and Women's Hospital
# Dominique Belhachemi, University of Pennsylvania
# Anthony Blumfiled, Radnostics
# Lucile Bompard, UNC NIRAL
# Sylvain Bouix, Brigham and Women's Hospital
# Francois Budin, UNC NIRAL
# Steve Callahan, University of Utah
# Joshua Cates, University of Utah
# Micah Chambers, Laboratory of NeuroImaging
# Laurent Chauvin, Brigham and Women's Hospital
# Rivka Colen, Brigham and Women's Hospital
# Nikos Chrisochoides, Old Dominion University
# Adrian Dalca, Massachusetts Institute of Technology
# Manasi Datar, University of Utah
# Colin Davey
# Ryan Eckbo, Brigham and Women's Hospital
# Jan Egger, University Hospital of Marburg
# Luping Fang, Zhejiang University of Technology, China
# Mahshid Farzinfar, University of North Carolina at Chapel Hill
# Andriy Fedorov, Brigham and Women's Hospital
# Jean-Christophe Fillion-Robin, Kitware, Inc.
# Julien Finet, Kitware, Inc.
# James Fishbaugh, University of Utah
# Yi Gao, Georgia Institute of Technology
# Greg Gardner, University of Utah
# Ronen Globinsky, Yale University
# Randy Gollub, MGH
# Maged Goubran, Robarts Research Institute
# Vivian He, Brigham and Women's Hospital
# Daniel Haehn, University of Pennsylvania
# Mike Halle, Brigham and Women's Hospital
# Marcus Hanwell, Kitware, Inc.
# Noby Hata, Brigham and Women's Hospital
#Katie Hayes, MGH
# Tamas Heffter, Queen's University
# Nicholas Herlambang, AZE, Ltd.
# Firdaus Janoos, Brigham and Women's Hospital
# Luis Ibanez, Kitware, Inc.
# Andrei Irimia, University of California, Los Angeles
# Hans Johnson, University of Iowa
# Ilknur Kabul, Kitware, Inc.
# Tina Kapur, Brigham and Women's Hospital
# Peter Karasev, Georgia Institute of Technology
# Ron Kikinis, Brigham and Women's Hospital
# Regina Kim, University of Iowa
# Ivan Kolesov, Georgia Institute of Technology
# Szymon Kostrzewski, Ecole Polytechnique Federale de Lausanne EPFL
# Dillon Lee, University of Utah
# Yinpeng Li, UNC-NIRAL
# Yifei Lou, Georgia Institute of Technology
# Mohsen Mahvash, Harvard Medical School (BWH and VA)
# Nikos Makris, Massachusetts General Hospital
# Katie Mastrogiacomo, Brigham and Women's Hospital
# Joy Matsui, University of Iowa
# Dominik Meier, Brigham and Women's Hospital
# Mikhail Milchenko, Washington University in St. Louis
# James Miller, GE Research
# Zach Mullen, Kitware, Inc.
# Isaiah Norton, Brigham and Women's Hospital
# Lauren O'Donnell, Brigham and Women's Hospital
# Danielle Pace, Kitware, Inc.
# Beatriz Paniagua, University of North Carolina at Chapel Hill
# Xenophon Papademetris, Yale University
# Kedar Patwardhan, GE Global Research
# Steve Pieper, Isomics, Inc.
# Csaba Pinter, Queen's University
# Wendy Plesniak, Brigham and Women's Hospital
#Clare Poynton, MIT
# Kilian Pohl, University of Pennsylvania
# Marcel Prastawa, University of Utah
# Sonia Pujol, Brigham and Women's Hospital
# Martin Rajchl, Robarts Research Institute
# Ramesh Sridharan, Massachusetts Institute of Technology
# Petter Risholm, Brigham and Women's Hospital
# Peter Savadjiev, Brigham and Women's Hospital
# Will Schroeder, Kitware, Inc.
# Andreas Schuh, University of Pennsylvania
# Mark Scully, University of Iowa
# Gregory Sharp, Massachusetts General Hospital
# Junichi Tokuda, Brigham and Women's Hospital
# Yundi Shi, University of North Carolina at Chapel Hill
# Matthew Toews, Brigham and Women's Hospital
# Nadya Shusharina, Massachusetts General Hospital
# Hao Su, Worcester Polytechnic Institute
# Suares Tamekue, Brigham and Women's Hospital
# Xiaodong Tao, GE Research
# Clement Vachet, UNC Chapel Hill
# Antonio Vega, Brigham and Women's Hospital
# Gopal Veni, University of Utah
# Bo Wang, University of Utah
# Andrew Wasam, CoSMo Software Inc.
# Demian Wassermann, Brigham and Women's Hospital
# Sandy Wells, Brigham and Women's Hospital
# Jason White, Brigham and Women's Hospital
# Mallika Winsor, Brigham and Women's Hospital
# Atsushi Yamada, Brigham and Women's Hospital
# Alexander Yarmarkovich, Isomics, Inc.
# Alexander Zaitsev, Brigham and Women's Hospital
# Ming Zhao, Sun Yat-Sen University Cancer Center, GuangZhou, China

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2011 Summer Project Week

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2011 Summer Project Week

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Back to [[Events]]

<gallery>
image:PW-MIT2011.png|Event logo
image:Panorama-summer-2011.png|[http://360.io/Afjepd Interactive Panorama of Project Week] (Works on chrome, maybe not on other browsers)
image:Pano2summer2011namic.jpg|[http://botview.appspot.com/viewer/pan0.swf?panoSrc=/media/4104002&FOV=52 Interactive Panorama of Project Week] (Needs flash)
image:PW-Boston-2011-Luping-Ron-IMG 0077.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0065.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0068.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0071.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0140.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0142.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0144.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0146.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0148.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0005.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0005.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0006.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0007.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0013.JPG|Monday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0014.JPG|Monday afternoon :)
</gallery>

*'''Dates:''' June 20-24, 2011
*'''Location:''' MIT ([http://whereis.mit.edu/?go=34 Grier Rooms Location on MIT Campus Map])

==Preliminary Agenda==
==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 20
!style="width:18%" |Tuesday, June 21
!style="width:18%" |Wednesday, June 22
!style="width:18%" |Thursday, June 23
!style="width:18%" |Friday, June 24
|-
|
|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 Extension (Writing Tutorial) ([[media:AHM-2011-SlicerExtensions.pdf|pdf]], [[media:AHM-2011-SlicerExtensions.ppt|ppt]]) (Jean-Christophe Fillion-Robin)
'''10-11am''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] (Continued) <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>----------------------------------------<br>
'''11-12pm: <font color="#4020ff">Breakout Session:'''</font> [[2011 Summer Project Week Breakout Session Slicer4 Annotation|Slicer4 Annotations]] (Nicole Aucoin)<br>
[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''9am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Project Week Breakout Session: ITK|ITK]] (Luis Ibanez)
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''9am-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
<br>'''10:30am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:DiffusionMRI|DiffusionMRI]]<br>
<br>[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
<br>[[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: <font color="#503020">Ron Kikinis: Welcome</font>'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3:30-4:15pm''' Slicer4 Developers Guided Tour (Pieper) ([[media:2011 Summer-Slicer4.ppt|Slides]]). <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' How to get DBP Data <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Right)]]
|'''1-3pm: <font color="#4020ff">Breakout Session:'''</font><br> [http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer#Summer_2011_Project_Week_Breakout_Session Slicer4 MultiVolume Containers] (Nicole Aucoin)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
<br>----------------------------------------<br>
'''3-4pm:''' [[Summer_2011_Tutorial_Contest|Tutorial Contest Presentations]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''4-5pm:''' [[2011 Summer Project Week Breakout Session VTKCharts|VTK Charts]] (Marcus Hanwell) ([[media:NA-MIC-VTK-Charts-2011.pdf|Slides]])
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2011|Tutorial Contest Winner Announcement]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3-4pm: <font color="#4020ff">Breakout Session:'''</font><br>[[2011_Summer_Project_Week_Breakout_Session_EMRegistration|Inter-subject Registration for EM segmenter]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''1-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[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==

* Please make a link for your project to a new page based on the [[2011_Summer_Project_Week_Template| 2011 Summer Project Page Template]]

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

#[[2011_Summer_Project_Week_Segmentation_TBI|Segmentation of Longitudinal TBI data]] (Bo Wang, Jack Van Horn, Andrei Irimia, Micah Chambers, Marcel Prastawa, Guido Gerig)
#[[Multimodality Image Registration for TBI]] (Yifei Lou, Danielle Pace, Jack Van Horn, Micah Chambers)
#[[2011_Summer_Project_Week_White_Matter_Laterality|White Matter Laterality in Python/Slicer4]] (Lauren O'Donnell)
#[[2011_Summer_Project_Week_Intraoperative_Brain_Shift_Monitor|Intraoperative Brain Shift Monitor]] (Jason White, Alex Golby, Steve Pieper, Junichi Tokuda)
#[[2011_Summer_Project_Week_GBM_Masks|Obtaining and Evaluation of Glioblastoma Multiforme (GBM) Segmentation Masks]] (Jan Egger,Tina Kapur, Andriy Fedorov, Rivka Colen, Ron Kikinis, Alex Golby, Christopher Nimsky)
#[[2011_Summer_Project_Week_NerveSeg|Segmentation of Nerve and Nerve Ganglia in the Spine]] (Adrian Dalca, Giovanna Danagoulian, Ron Kikinis, Ehud Schmidt, Polina Golland)
#[[2011_Summer_Project_Week_Spine_Segmentation_And_Osteoporosis_Screening_CT|Spine Segmentation & Osteoporosis Screening In CT Imaging Studies]] (Anthony Blumfield)
#[[2011_Summer_Project_Week_Quantitative_Magnetic_Susceptibility_Mapping|Quantitative Magnetic Susceptibility Mapping ]] (Clare Poynton)

'''Radiation Therapy'''
#[[2011_Summer Project Week_Non-rigid_inter-patient_registration_of_bone_masks_derived_from_CT_for_Head_and_Neck_Cancer_Radiation_Therapy|Non-rigid, inter-patient registration of bone masks derived from CT for Head and Neck Cancer Radiation Therapy]] (Ivan Kolesov, Yi Gao, Gregory Sharp, Xiaodong Tao, Nadya Shusharina, Allen Tannenbaum)
#[[2011_Summer_Project_Week_Contouring_Gyne_Structures|Contouring of Anatomy Structures like Tumor, Bladder, Rectum and Sigmoid for Gynecological Brachytherapy]] (Tina Kapur, Akila Viswanathan, Jan Egger)
#[[2011_Summer_Project_Week_Slicer_DICOM_RT_Brachytherapy|Visualization of DICOM RT Planning Contours and Dose Distributions for Prostate and Gynecologic Brachytherapy in Slicer]] (Firdaus Janoos, Jan Egger, Greg Sharp, Andriy Fedorov, Tina Kapur)
#[[2011_Summer_Project__Week_DVH|Dose volume histograms in Slicer]] (Greg Sharp, Nadya Shusharina, Steve Pieper, Csaba Pinter, Tina Kapur)
#[[2011_Summer_Project__Week_DICOM_RT|Synthetic images, vector fields, RT structures and RT doses in Slicer and ITK]]. (Nadya Shusharina, Greg Sharp, Luis Ibanez, Steve Pieper)

'''Huntington's Disease'''
#[[2011_Summer_Project_Week_Iowa_Huntington's_disease_data_sharing | Iowa Huntington's Disease Data Sharing]] (Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week_normal_consistency_particles|Normal consistency in particle correspondence computation using great circles in principal spheres - Huntington's Disease]], (Beatriz Paniagua, Martin Styner, Sungkyu Jung, Mark Scully)
#[[2011_Summer_Project__Week_Shape_Analysis_UNC |SPHARM & particles shape analysis - Huntington's Disease]] (Lucile Bompard, Clement Vachet, Beatriz Paniagua, Martin Styner
#[[2011_Summer_Project_Week_long_shape_regression|Longitudinal Shape Regression - Huntington's Disease]] (James Fishbaugh, Marcel Prastawa, Guido Gerig, Hans Johnson)
#[[2011_Summer_Project_Week_DTIPrep|DTIPrep - "Study-specific Protocol" based automatic DWI/DTI quality control and preparation]] - Huntington's Disease (Mahshid Farzinfar, Clement Vachet, Joy Matsui, Martin Styner)
#[[2011_Summer_Project_Week_DTI_PairWise_Registration|DTI pair-wise registration module]] - Huntington's Disease (Clement Vachet, Joy Matsui, Mark Scully, Martin Styner)
#[[2011_Summer_Project_Week_DTI analysis_for_Huntington's_disease | DTI analysis for Huntington's disease]] (Gopal Veni, Ross Whitaker)

'''Atrial Fibrillation'''
#[[2011_Summer_Project_Week_RSS_for_AFib_Ablation|Robust Statistical Segmentation (RSS) for the Atrial Fibrillation Ablation Therapy]] (Yi Gao, Kedar Patwardhan, Steve Pieper, Wassim Haddad, and Allen Tannenbaum, Rob MacLeod, Josh Blauer, and Josh Cates)
#[[2011_Summer_Project_Week_Watersheds|Interactive Watersheds Segmentation Module for Slicer for Atrial Fibrillation and HN Cancer]] (Josh Cates, Ross Whitaker, Steve Pieper, Jim Miller, Nadya)

'''Device Integration with Slicer and General Image Guided Therapy'''
#[[2011_Summer_Project__Week_Wireless_Joystick|Wireless joystick controlling medical devices and software (e.g. Slicer4) in the operating room]] (Szymon Kostrzewski)
#[[2011_Summer_Project__Week_Live_Tracked_Ultrasound|Live Tracked Ultrasound with Slicer4 (Tamas Heffter)]]
#[http://wiki.na-mic.org/Wiki/index.php/Survey_stealthlink_openigtlink Surveying research teams interested in Open IGT Link support of Stealth Station (Nobuhiko Hata, Ron Kikinis)]
#[[2011_Summer_Project_Week_Needle_Detection_to_Control_Scanner_for_Prostate_Biopsy | Needle Detection to Control Scanner for Prostate Biopsy ]] (Atsushi Yamada, Loïc Cadour, Junichi Tokuda and Nobuhiko Hata)
#[[2011_Summer_Project_Week_Segementation_Reconstruction_Pericardial_Sac]] (Mohsen Mahvash, Noby Hata, Ron Kikinis)
#[[2011_Summer_Project_Week_4DUltrasound_HybridProbe_OsteoPlan|4D Ultrasound / Hybrid Probe / OsteoPlan]] (Laurent Chauvin, Noby Hata)
#[[2011_Summer_Project_Week_AMIGO|AMIGO]] (Mallika Winsor, Vivian He, Dan Kacher, Tina Kapur)
#[[2011_Summer_Project_Week_Patient_Mounted_Robot|Patient-mounted Robot Control using OpenIGTLink]] (Conor James Walsh, Maryam Shokri, Faye Wu)
#[[2011_Summer_project_Week_Open_Source_Electromagnetic_Trackers_using_OpenIGTLink|Open-source Electromagnetic Trackers using OpenIGTLink]] (Peter Traneus Anderson)

'''General Segmentation'''
#[[2011_Summer_Project_Week_Integrate_BRAINSCut_into_Slicer3]](Regina Kim, ... )
#[[2011_Summer_Project_Week_EMSegmentation_in_3D_Slicer4|EM Segmentation in 3D Slicer 4]] (Daniel Haehn, Dominique Belhachemi, Kilian Pohl)
#[[2011_Summer_Project_Week_Customizing_EMSegmenter_pipelines_for_brain_lesions | Customizing EMSegmenter pipelines for brain lesions]] (Dominique Belhachemi, Alexander Zaitsev, Kilian Pohl)
#[[2011_Summer_Project_Week_Plastimatch_for_EMSegmenter | Integrating Plastimatch into the EMSegmenter]] (Dominique Belhachemi, Kilian Pohl, Greg Sharp, Daniel Haehn)
#[[2011_Summer_Project_Week_Slicer_Extension_for_GLISTR | Slicer extension for GLiome Image SegmenTation and Registration (GLISTR)]] (Andreas Schuh, Daniel Haehn, Kilian Pohl)

'''General Registration'''
#[[2011_Summer_Project_Week__BRAINSFit_new_features_integration|Integrate new features into BRAINSFit]] (Andrey Fedorov, Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week__LANDWARP_integration|Integration of LANDWARP into interactive registration module]] (Andrey Fedorov, Greg Sharp, Nadya Shusharina)
#[[2011_Summer_Project_Week_Registration_of_mouse_brains|Registration of mouse brains]] (Francois Budin, Ipek Oguz, Martin Styner, Dominik Meier)
#[[NonRigidRegistrationThatAccommodatesResection|Demons Based Non-Rigid Registration that Accommodates Resection in 3D Slicer]] (Petter Risholm, Jim Miller, Sandy Wells)
#[[2011_Summer_Project_Week_SlidingOrganRegistrationFED|Integrate Fast Explicit Diffusion into Sliding Organ Registration module]] (Danielle Pace)
#[[2011_Summer_Project_Week_Image_Manifold_Learning_with_Spectral_Embedding_and_Laplacian_Eigenmaps|Image Manifold Learning with Spectral Embedding and Laplacian Eigenmaps]] (Ramesh Sridharan, Polina Golland)

'''General Diffusion Tractography'''
#[[2011_Summer_Project_Week_WMGeometry_Slicer4 | White matter geometry measures in Slicer 4]] (Peter Savadjiev)
#[[2011_Summer_Project_Week_re-parameterize_fiber|Re-parametrize fiber tracts for fiber statistics analysis]] (Yundi Shi, Clement Vachet, Benjamin Yvernault, Anuja Sharma, Martin Styner)
#[[2011_Summer_Project_Week_ODF_though_Fiber_Counting | ODF computation through fiber counting]] (Yinpeng Li, Ipek Oguz, Martin Styner)
#[[2011_Summer_Project_Week_Nifti_Support_for_Diffusion_Tensor_Images|Nifti Support for Diffusion Tensor Images]] (Demian)
#[[2011_Summer_Project_Week_Finishing_details_on_the_workflows_DICOM_full_brain_tractography_peritumoral|Finishing details on the workflows: DICOM->Full brain tractography / peritumoral]] (Demian)
#[[Summer_project_week_2011_Finsler_Streamlines|Adding streamlined tractography to the Finsler front propagation tractography toolkit]] (Antonio Tristán-Vega)
#[[2011_Summer_Project_Week_Slicer4_Tractography_Interaction_and_Display|Tractography Bundle/Cluster Interaction and Display in Slicer4]] (Isaiah Norton, Lauren O'Donnell, Demian Wasserman)
#[[2011_Summer_Project_Week_DTI_Volumetric_Tractography | DTI Volumetric Tractography]] (Steve Callahan, Mark Scully, Jim Miller)
#[[2011_Summer_Project_Week_DWI_Atlas | Slicer module for building an average population DWI Atlas]] (Ryan Eckbo, Sylvain Bouix)
#[[2011_Summer_Project_Week_DTI_Volumetric_Segmentation_for_Group_studies | DTI Volumetric Segmentation for Group studies]] (Gopal Veni, Ross Whitaker)

'''Vessels'''
#[[2011_Summer_Project_Week_SlicerVmtk4|The Vascular Modeling Toolkit in 3D Slicer 4]] (Daniel Haehn, Luca Antiga, Steve Pieper, Kilian Pohl, Ron Kikinis)
#[[2011_Summer_Project__Week_Stenosis_Detector|Stenosis Detector in 3D Slicer 4]] (Suares Tamekue, Daniel Haehn, Luca Antiga, Ron Kikinis)

'''Infrastructure'''
#[[2011_Summer_Project_Week_Annotation_Module|Annotation Module in Slicer4]] (Nicole Aucoin, Daniel Haehn)
#[[2011_Summer_Project_Week_RECIST|RECIST Slicer4 module]] (Nicole Aucoin)
#[[2011_Summer_Project_Week_Dicom2Nrrd|DicomToNrrdConverter refactoring]] ( Xiaodong Tao, Mark Scully)
#[[Summer_project_week_2011_Workflows_SOA|Workflows and Service Oriented Architecture Modules for Slicer4 as Extensions]] (Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis)
#[[2011_Summer_Project__Week_DICOM_Networking|DICOM Networking interface for Slicer4]] (Steve Pieper, Nicole Aucoin, Noby Hata)
#[[2011_Summer_Project_Week_Automated_GUI_Testing| Automated GUI Testing (Sonia Pujol, Steve Pieper, Dave Partyka, Jean-Christophe Fillion-Robin, Xiaodong Tao)]]
#[[2011_Summer_Project_Week_FetchMI:_Slicer_integration_with_XNAT |FetchMI: Slicer integration with XNAT 1.5]] (Misha Milchenko, Wendy Plesniak)
#[[2011_Summer_Project_Week_Internationalization_of_Slicer|Internationalization of Slicer]] (Luping Fang, Steve Pieper, Daniel Haehn, Suares Tamekue, Jean-Christophe Fillion-Robin, Julien Finet, Yiming Ge, Ping Cao)

==Background==

We are pleased to announce the 13th PROJECT WEEK of hands-on research and development activity for applications in Image-Guided Therapy, Neuroscience, 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 28th 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], and [http://www.cimit.org CIMIT]. 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 20-24, 2011
*'''Location:''' MIT. [[Meeting_Locations:MIT_Grier_A_%26B|Grier Rooms A & B: 34-401A & 34-401B]].
*'''REGISTRATION:''' Please register [http://guest.cvent.com/d/sdqy0l/4W here]. Payment must be made by credit card.
*'''Registration Fee:''' $260 (covers the cost of breakfast, lunch and coffee breaks for the week).
*'''Hotel:''' Boston Marriott Cambridge, Two Cambridge Center, 50 Broadway, Cambridge, MA 02142. Group rate is $199/night plus tax. Book [http://www.marriott.com/hotels/travel/boscb?groupCode=jrbjrba&app=resvlink&fromDate=6/19/11&toDate=6/24/11 here] or call 1-617-494-6600 and mention that you are booking in the MIT Room Block. '''All reservations must be made by May 29, 2011 to receive the discounted rate.'''

== 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 28, 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 12, all participants to add a one line title of their project to #Projects
#By 3pm ET on Thursday June 9, 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 16: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Zack)
## 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.)
## 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. (Zack)
# 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.
## Projects to develop extension modules should work with the [http://viewvc.slicer.org/viewcvs.cgi/branches/Slicer-3-6/#dirlist Slicer-3-6 branch] (new code should not be checked into the branch).
## Projects to modify core behavior of slicer should be done on the [http://viewvc.slicer.org/viewcvs.cgi/trunk/ trunk].

==Registrants==

Do not add your name to this list- it is maintained by the organizers based on your paid registration (see Logistics for link)
# Peter Anderson, Retired
# Nicole Aucoin, Brigham and Women's Hospital
# Dominique Belhachemi, University of Pennsylvania
# Anthony Blumfiled, Radnostics
# Lucile Bompard, UNC NIRAL
# Sylvain Bouix, Brigham and Women's Hospital
# Francois Budin, UNC NIRAL
# Steve Callahan, University of Utah
# Joshua Cates, University of Utah
# Micah Chambers, Laboratory of NeuroImaging
# Laurent Chauvin, Brigham and Women's Hospital
# Rivka Colen, Brigham and Women's Hospital
# Nikos Chrisochoides, Old Dominion University
# Adrian Dalca, Massachusetts Institute of Technology
# Manasi Datar, University of Utah
# Colin Davey
# Ryan Eckbo, Brigham and Women's Hospital
# Jan Egger, University Hospital of Marburg
# Luping Fang, Zhejiang University of Technology, China
# Mahshid Farzinfar, University of North Carolina at Chapel Hill
# Andriy Fedorov, Brigham and Women's Hospital
# Jean-Christophe Fillion-Robin, Kitware, Inc.
# Julien Finet, Kitware, Inc.
# James Fishbaugh, University of Utah
# Yi Gao, Georgia Institute of Technology
# Greg Gardner, University of Utah
# Ronen Globinsky, Yale University
# Randy Gollub, MGH
# Maged Goubran, Robarts Research Institute
# Vivian He, Brigham and Women's Hospital
# Daniel Haehn, University of Pennsylvania
# Mike Halle, Brigham and Women's Hospital
# Marcus Hanwell, Kitware, Inc.
# Noby Hata, Brigham and Women's Hospital
#Katie Hayes, MGH
# Tamas Heffter, Queen's University
# Nicholas Herlambang, AZE, Ltd.
# Firdaus Janoos, Brigham and Women's Hospital
# Luis Ibanez, Kitware, Inc.
# Andrei Irimia, University of California, Los Angeles
# Hans Johnson, University of Iowa
# Ilknur Kabul, Kitware, Inc.
# Tina Kapur, Brigham and Women's Hospital
# Peter Karasev, Georgia Institute of Technology
# Ron Kikinis, Brigham and Women's Hospital
# Regina Kim, University of Iowa
# Ivan Kolesov, Georgia Institute of Technology
# Szymon Kostrzewski, Ecole Polytechnique Federale de Lausanne EPFL
# Dillon Lee, University of Utah
# Yinpeng Li, UNC-NIRAL
# Yifei Lou, Georgia Institute of Technology
# Mohsen Mahvash, Harvard Medical School (BWH and VA)
# Nikos Makris, Massachusetts General Hospital
# Katie Mastrogiacomo, Brigham and Women's Hospital
# Joy Matsui, University of Iowa
# Dominik Meier, Brigham and Women's Hospital
# Mikhail Milchenko, Washington University in St. Louis
# James Miller, GE Research
# Zach Mullen, Kitware, Inc.
# Isaiah Norton, Brigham and Women's Hospital
# Lauren O'Donnell, Brigham and Women's Hospital
# Danielle Pace, Kitware, Inc.
# Beatriz Paniagua, University of North Carolina at Chapel Hill
# Xenophon Papademetris, Yale University
# Kedar Patwardhan, GE Global Research
# Steve Pieper, Isomics, Inc.
# Csaba Pinter, Queen's University
# Wendy Plesniak, Brigham and Women's Hospital
#Clare Poynton, MIT
# Kilian Pohl, University of Pennsylvania
# Marcel Prastawa, University of Utah
# Sonia Pujol, Brigham and Women's Hospital
# Martin Rajchl, Robarts Research Institute
# Ramesh Sridharan, Massachusetts Institute of Technology
# Petter Risholm, Brigham and Women's Hospital
# Peter Savadjiev, Brigham and Women's Hospital
# Will Schroeder, Kitware, Inc.
# Andreas Schuh, University of Pennsylvania
# Mark Scully, University of Iowa
# Gregory Sharp, Massachusetts General Hospital
# Junichi Tokuda, Brigham and Women's Hospital
# Yundi Shi, University of North Carolina at Chapel Hill
# Matthew Toews, Brigham and Women's Hospital
# Nadya Shusharina, Massachusetts General Hospital
# Hao Su, Worcester Polytechnic Institute
# Suares Tamekue, Brigham and Women's Hospital
# Xiaodong Tao, GE Research
# Clement Vachet, UNC Chapel Hill
# Antonio Vega, Brigham and Women's Hospital
# Gopal Veni, University of Utah
# Bo Wang, University of Utah
# Andrew Wasam, CoSMo Software Inc.
# Demian Wassermann, Brigham and Women's Hospital
# Sandy Wells, Brigham and Women's Hospital
# Jason White, Brigham and Women's Hospital
# Mallika Winsor, Brigham and Women's Hospital
# Atsushi Yamada, Brigham and Women's Hospital
# Alexander Yarmarkovich, Isomics, Inc.
# Alexander Zaitsev, Brigham and Women's Hospital
# Ming Zhao, Sun Yat-Sen University Cancer Center, GuangZhou, China

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2011 Summer Project Week

2011-06-25T22:23:15Z

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Back to [[Events]]

<gallery>
image:PW-MIT2011.png|Event logo
image:Panorama-summer-2011.png|[http://360.io/Afjepd Interactive Panorama of Project Week] (Works on chrome, maybe not on other browsers)
image:Pano2summer2011namic.jpg|[http://botview.appspot.com/viewer/pan0.swf?panoSrc=/media/4104002&FOV=52 Interactive Panorama of Project Week] (Needs flash)
image:PW-Boston-2011-Luping-Ron-IMG 0077.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0065.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0068.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0071.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0140.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0142.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0144.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0146.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0148.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0071.JPG|Friday afternoon :)
</gallery>

*'''Dates:''' June 20-24, 2011
*'''Location:''' MIT ([http://whereis.mit.edu/?go=34 Grier Rooms Location on MIT Campus Map])

==Preliminary Agenda==
==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 20
!style="width:18%" |Tuesday, June 21
!style="width:18%" |Wednesday, June 22
!style="width:18%" |Thursday, June 23
!style="width:18%" |Friday, June 24
|-
|
|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 Extension (Writing Tutorial) ([[media:AHM-2011-SlicerExtensions.pdf|pdf]], [[media:AHM-2011-SlicerExtensions.ppt|ppt]]) (Jean-Christophe Fillion-Robin)
'''10-11am''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] (Continued) <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>----------------------------------------<br>
'''11-12pm: <font color="#4020ff">Breakout Session:'''</font> [[2011 Summer Project Week Breakout Session Slicer4 Annotation|Slicer4 Annotations]] (Nicole Aucoin)<br>
[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''9am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Project Week Breakout Session: ITK|ITK]] (Luis Ibanez)
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''9am-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
<br>'''10:30am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:DiffusionMRI|DiffusionMRI]]<br>
<br>[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
<br>[[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: <font color="#503020">Ron Kikinis: Welcome</font>'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3:30-4:15pm''' Slicer4 Developers Guided Tour (Pieper) ([[media:2011 Summer-Slicer4.ppt|Slides]]). <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' How to get DBP Data <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Right)]]
|'''1-3pm: <font color="#4020ff">Breakout Session:'''</font><br> [http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer#Summer_2011_Project_Week_Breakout_Session Slicer4 MultiVolume Containers] (Nicole Aucoin)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
<br>----------------------------------------<br>
'''3-4pm:''' [[Summer_2011_Tutorial_Contest|Tutorial Contest Presentations]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''4-5pm:''' [[2011 Summer Project Week Breakout Session VTKCharts|VTK Charts]] (Marcus Hanwell) ([[media:NA-MIC-VTK-Charts-2011.pdf|Slides]])
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2011|Tutorial Contest Winner Announcement]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3-4pm: <font color="#4020ff">Breakout Session:'''</font><br>[[2011_Summer_Project_Week_Breakout_Session_EMRegistration|Inter-subject Registration for EM segmenter]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''1-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[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==

* Please make a link for your project to a new page based on the [[2011_Summer_Project_Week_Template| 2011 Summer Project Page Template]]

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

#[[2011_Summer_Project_Week_Segmentation_TBI|Segmentation of Longitudinal TBI data]] (Bo Wang, Jack Van Horn, Andrei Irimia, Micah Chambers, Marcel Prastawa, Guido Gerig)
#[[Multimodality Image Registration for TBI]] (Yifei Lou, Danielle Pace, Jack Van Horn, Micah Chambers)
#[[2011_Summer_Project_Week_White_Matter_Laterality|White Matter Laterality in Python/Slicer4]] (Lauren O'Donnell)
#[[2011_Summer_Project_Week_Intraoperative_Brain_Shift_Monitor|Intraoperative Brain Shift Monitor]] (Jason White, Alex Golby, Steve Pieper, Junichi Tokuda)
#[[2011_Summer_Project_Week_GBM_Masks|Obtaining and Evaluation of Glioblastoma Multiforme (GBM) Segmentation Masks]] (Jan Egger,Tina Kapur, Andriy Fedorov, Rivka Colen, Ron Kikinis, Alex Golby, Christopher Nimsky)
#[[2011_Summer_Project_Week_NerveSeg|Segmentation of Nerve and Nerve Ganglia in the Spine]] (Adrian Dalca, Giovanna Danagoulian, Ron Kikinis, Ehud Schmidt, Polina Golland)
#[[2011_Summer_Project_Week_Spine_Segmentation_And_Osteoporosis_Screening_CT|Spine Segmentation & Osteoporosis Screening In CT Imaging Studies]] (Anthony Blumfield)
#[[2011_Summer_Project_Week_Quantitative_Magnetic_Susceptibility_Mapping|Quantitative Magnetic Susceptibility Mapping ]] (Clare Poynton)

'''Radiation Therapy'''
#[[2011_Summer Project Week_Non-rigid_inter-patient_registration_of_bone_masks_derived_from_CT_for_Head_and_Neck_Cancer_Radiation_Therapy|Non-rigid, inter-patient registration of bone masks derived from CT for Head and Neck Cancer Radiation Therapy]] (Ivan Kolesov, Yi Gao, Gregory Sharp, Xiaodong Tao, Nadya Shusharina, Allen Tannenbaum)
#[[2011_Summer_Project_Week_Contouring_Gyne_Structures|Contouring of Anatomy Structures like Tumor, Bladder, Rectum and Sigmoid for Gynecological Brachytherapy]] (Tina Kapur, Akila Viswanathan, Jan Egger)
#[[2011_Summer_Project_Week_Slicer_DICOM_RT_Brachytherapy|Visualization of DICOM RT Planning Contours and Dose Distributions for Prostate and Gynecologic Brachytherapy in Slicer]] (Firdaus Janoos, Jan Egger, Greg Sharp, Andriy Fedorov, Tina Kapur)
#[[2011_Summer_Project__Week_DVH|Dose volume histograms in Slicer]] (Greg Sharp, Nadya Shusharina, Steve Pieper, Csaba Pinter, Tina Kapur)
#[[2011_Summer_Project__Week_DICOM_RT|Synthetic images, vector fields, RT structures and RT doses in Slicer and ITK]]. (Nadya Shusharina, Greg Sharp, Luis Ibanez, Steve Pieper)

'''Huntington's Disease'''
#[[2011_Summer_Project_Week_Iowa_Huntington's_disease_data_sharing | Iowa Huntington's Disease Data Sharing]] (Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week_normal_consistency_particles|Normal consistency in particle correspondence computation using great circles in principal spheres - Huntington's Disease]], (Beatriz Paniagua, Martin Styner, Sungkyu Jung, Mark Scully)
#[[2011_Summer_Project__Week_Shape_Analysis_UNC |SPHARM & particles shape analysis - Huntington's Disease]] (Lucile Bompard, Clement Vachet, Beatriz Paniagua, Martin Styner
#[[2011_Summer_Project_Week_long_shape_regression|Longitudinal Shape Regression - Huntington's Disease]] (James Fishbaugh, Marcel Prastawa, Guido Gerig, Hans Johnson)
#[[2011_Summer_Project_Week_DTIPrep|DTIPrep - "Study-specific Protocol" based automatic DWI/DTI quality control and preparation]] - Huntington's Disease (Mahshid Farzinfar, Clement Vachet, Joy Matsui, Martin Styner)
#[[2011_Summer_Project_Week_DTI_PairWise_Registration|DTI pair-wise registration module]] - Huntington's Disease (Clement Vachet, Joy Matsui, Mark Scully, Martin Styner)
#[[2011_Summer_Project_Week_DTI analysis_for_Huntington's_disease | DTI analysis for Huntington's disease]] (Gopal Veni, Ross Whitaker)

'''Atrial Fibrillation'''
#[[2011_Summer_Project_Week_RSS_for_AFib_Ablation|Robust Statistical Segmentation (RSS) for the Atrial Fibrillation Ablation Therapy]] (Yi Gao, Kedar Patwardhan, Steve Pieper, Wassim Haddad, and Allen Tannenbaum, Rob MacLeod, Josh Blauer, and Josh Cates)
#[[2011_Summer_Project_Week_Watersheds|Interactive Watersheds Segmentation Module for Slicer for Atrial Fibrillation and HN Cancer]] (Josh Cates, Ross Whitaker, Steve Pieper, Jim Miller, Nadya)

'''Device Integration with Slicer and General Image Guided Therapy'''
#[[2011_Summer_Project__Week_Wireless_Joystick|Wireless joystick controlling medical devices and software (e.g. Slicer4) in the operating room]] (Szymon Kostrzewski)
#[[2011_Summer_Project__Week_Live_Tracked_Ultrasound|Live Tracked Ultrasound with Slicer4 (Tamas Heffter)]]
#[http://wiki.na-mic.org/Wiki/index.php/Survey_stealthlink_openigtlink Surveying research teams interested in Open IGT Link support of Stealth Station (Nobuhiko Hata, Ron Kikinis)]
#[[2011_Summer_Project_Week_Needle_Detection_to_Control_Scanner_for_Prostate_Biopsy | Needle Detection to Control Scanner for Prostate Biopsy ]] (Atsushi Yamada, Loïc Cadour, Junichi Tokuda and Nobuhiko Hata)
#[[2011_Summer_Project_Week_Segementation_Reconstruction_Pericardial_Sac]] (Mohsen Mahvash, Noby Hata, Ron Kikinis)
#[[2011_Summer_Project_Week_4DUltrasound_HybridProbe_OsteoPlan|4D Ultrasound / Hybrid Probe / OsteoPlan]] (Laurent Chauvin, Noby Hata)
#[[2011_Summer_Project_Week_AMIGO|AMIGO]] (Mallika Winsor, Vivian He, Dan Kacher, Tina Kapur)
#[[2011_Summer_Project_Week_Patient_Mounted_Robot|Patient-mounted Robot Control using OpenIGTLink]] (Conor James Walsh, Maryam Shokri, Faye Wu)
#[[2011_Summer_project_Week_Open_Source_Electromagnetic_Trackers_using_OpenIGTLink|Open-source Electromagnetic Trackers using OpenIGTLink]] (Peter Traneus Anderson)

'''General Segmentation'''
#[[2011_Summer_Project_Week_Integrate_BRAINSCut_into_Slicer3]](Regina Kim, ... )
#[[2011_Summer_Project_Week_EMSegmentation_in_3D_Slicer4|EM Segmentation in 3D Slicer 4]] (Daniel Haehn, Dominique Belhachemi, Kilian Pohl)
#[[2011_Summer_Project_Week_Customizing_EMSegmenter_pipelines_for_brain_lesions | Customizing EMSegmenter pipelines for brain lesions]] (Dominique Belhachemi, Alexander Zaitsev, Kilian Pohl)
#[[2011_Summer_Project_Week_Plastimatch_for_EMSegmenter | Integrating Plastimatch into the EMSegmenter]] (Dominique Belhachemi, Kilian Pohl, Greg Sharp, Daniel Haehn)
#[[2011_Summer_Project_Week_Slicer_Extension_for_GLISTR | Slicer extension for GLiome Image SegmenTation and Registration (GLISTR)]] (Andreas Schuh, Daniel Haehn, Kilian Pohl)

'''General Registration'''
#[[2011_Summer_Project_Week__BRAINSFit_new_features_integration|Integrate new features into BRAINSFit]] (Andrey Fedorov, Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week__LANDWARP_integration|Integration of LANDWARP into interactive registration module]] (Andrey Fedorov, Greg Sharp, Nadya Shusharina)
#[[2011_Summer_Project_Week_Registration_of_mouse_brains|Registration of mouse brains]] (Francois Budin, Ipek Oguz, Martin Styner, Dominik Meier)
#[[NonRigidRegistrationThatAccommodatesResection|Demons Based Non-Rigid Registration that Accommodates Resection in 3D Slicer]] (Petter Risholm, Jim Miller, Sandy Wells)
#[[2011_Summer_Project_Week_SlidingOrganRegistrationFED|Integrate Fast Explicit Diffusion into Sliding Organ Registration module]] (Danielle Pace)
#[[2011_Summer_Project_Week_Image_Manifold_Learning_with_Spectral_Embedding_and_Laplacian_Eigenmaps|Image Manifold Learning with Spectral Embedding and Laplacian Eigenmaps]] (Ramesh Sridharan, Polina Golland)

'''General Diffusion Tractography'''
#[[2011_Summer_Project_Week_WMGeometry_Slicer4 | White matter geometry measures in Slicer 4]] (Peter Savadjiev)
#[[2011_Summer_Project_Week_re-parameterize_fiber|Re-parametrize fiber tracts for fiber statistics analysis]] (Yundi Shi, Clement Vachet, Benjamin Yvernault, Anuja Sharma, Martin Styner)
#[[2011_Summer_Project_Week_ODF_though_Fiber_Counting | ODF computation through fiber counting]] (Yinpeng Li, Ipek Oguz, Martin Styner)
#[[2011_Summer_Project_Week_Nifti_Support_for_Diffusion_Tensor_Images|Nifti Support for Diffusion Tensor Images]] (Demian)
#[[2011_Summer_Project_Week_Finishing_details_on_the_workflows_DICOM_full_brain_tractography_peritumoral|Finishing details on the workflows: DICOM->Full brain tractography / peritumoral]] (Demian)
#[[Summer_project_week_2011_Finsler_Streamlines|Adding streamlined tractography to the Finsler front propagation tractography toolkit]] (Antonio Tristán-Vega)
#[[2011_Summer_Project_Week_Slicer4_Tractography_Interaction_and_Display|Tractography Bundle/Cluster Interaction and Display in Slicer4]] (Isaiah Norton, Lauren O'Donnell, Demian Wasserman)
#[[2011_Summer_Project_Week_DTI_Volumetric_Tractography | DTI Volumetric Tractography]] (Steve Callahan, Mark Scully, Jim Miller)
#[[2011_Summer_Project_Week_DWI_Atlas | Slicer module for building an average population DWI Atlas]] (Ryan Eckbo, Sylvain Bouix)
#[[2011_Summer_Project_Week_DTI_Volumetric_Segmentation_for_Group_studies | DTI Volumetric Segmentation for Group studies]] (Gopal Veni, Ross Whitaker)

'''Vessels'''
#[[2011_Summer_Project_Week_SlicerVmtk4|The Vascular Modeling Toolkit in 3D Slicer 4]] (Daniel Haehn, Luca Antiga, Steve Pieper, Kilian Pohl, Ron Kikinis)
#[[2011_Summer_Project__Week_Stenosis_Detector|Stenosis Detector in 3D Slicer 4]] (Suares Tamekue, Daniel Haehn, Luca Antiga, Ron Kikinis)

'''Infrastructure'''
#[[2011_Summer_Project_Week_Annotation_Module|Annotation Module in Slicer4]] (Nicole Aucoin, Daniel Haehn)
#[[2011_Summer_Project_Week_RECIST|RECIST Slicer4 module]] (Nicole Aucoin)
#[[2011_Summer_Project_Week_Dicom2Nrrd|DicomToNrrdConverter refactoring]] ( Xiaodong Tao, Mark Scully)
#[[Summer_project_week_2011_Workflows_SOA|Workflows and Service Oriented Architecture Modules for Slicer4 as Extensions]] (Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis)
#[[2011_Summer_Project__Week_DICOM_Networking|DICOM Networking interface for Slicer4]] (Steve Pieper, Nicole Aucoin, Noby Hata)
#[[2011_Summer_Project_Week_Automated_GUI_Testing| Automated GUI Testing (Sonia Pujol, Steve Pieper, Dave Partyka, Jean-Christophe Fillion-Robin, Xiaodong Tao)]]
#[[2011_Summer_Project_Week_FetchMI:_Slicer_integration_with_XNAT |FetchMI: Slicer integration with XNAT 1.5]] (Misha Milchenko, Wendy Plesniak)
#[[2011_Summer_Project_Week_Internationalization_of_Slicer|Internationalization of Slicer]] (Luping Fang, Steve Pieper, Daniel Haehn, Suares Tamekue, Jean-Christophe Fillion-Robin, Julien Finet, Yiming Ge, Ping Cao)

==Background==

We are pleased to announce the 13th PROJECT WEEK of hands-on research and development activity for applications in Image-Guided Therapy, Neuroscience, 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 28th 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], and [http://www.cimit.org CIMIT]. 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 20-24, 2011
*'''Location:''' MIT. [[Meeting_Locations:MIT_Grier_A_%26B|Grier Rooms A & B: 34-401A & 34-401B]].
*'''REGISTRATION:''' Please register [http://guest.cvent.com/d/sdqy0l/4W here]. Payment must be made by credit card.
*'''Registration Fee:''' $260 (covers the cost of breakfast, lunch and coffee breaks for the week).
*'''Hotel:''' Boston Marriott Cambridge, Two Cambridge Center, 50 Broadway, Cambridge, MA 02142. Group rate is $199/night plus tax. Book [http://www.marriott.com/hotels/travel/boscb?groupCode=jrbjrba&app=resvlink&fromDate=6/19/11&toDate=6/24/11 here] or call 1-617-494-6600 and mention that you are booking in the MIT Room Block. '''All reservations must be made by May 29, 2011 to receive the discounted rate.'''

== 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 28, 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 12, all participants to add a one line title of their project to #Projects
#By 3pm ET on Thursday June 9, 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 16: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Zack)
## 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.)
## 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. (Zack)
# 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.
## Projects to develop extension modules should work with the [http://viewvc.slicer.org/viewcvs.cgi/branches/Slicer-3-6/#dirlist Slicer-3-6 branch] (new code should not be checked into the branch).
## Projects to modify core behavior of slicer should be done on the [http://viewvc.slicer.org/viewcvs.cgi/trunk/ trunk].

==Registrants==

Do not add your name to this list- it is maintained by the organizers based on your paid registration (see Logistics for link)
# Peter Anderson, Retired
# Nicole Aucoin, Brigham and Women's Hospital
# Dominique Belhachemi, University of Pennsylvania
# Anthony Blumfiled, Radnostics
# Lucile Bompard, UNC NIRAL
# Sylvain Bouix, Brigham and Women's Hospital
# Francois Budin, UNC NIRAL
# Steve Callahan, University of Utah
# Joshua Cates, University of Utah
# Micah Chambers, Laboratory of NeuroImaging
# Laurent Chauvin, Brigham and Women's Hospital
# Rivka Colen, Brigham and Women's Hospital
# Nikos Chrisochoides, Old Dominion University
# Adrian Dalca, Massachusetts Institute of Technology
# Manasi Datar, University of Utah
# Colin Davey
# Ryan Eckbo, Brigham and Women's Hospital
# Jan Egger, University Hospital of Marburg
# Luping Fang, Zhejiang University of Technology, China
# Mahshid Farzinfar, University of North Carolina at Chapel Hill
# Andriy Fedorov, Brigham and Women's Hospital
# Jean-Christophe Fillion-Robin, Kitware, Inc.
# Julien Finet, Kitware, Inc.
# James Fishbaugh, University of Utah
# Yi Gao, Georgia Institute of Technology
# Greg Gardner, University of Utah
# Ronen Globinsky, Yale University
# Randy Gollub, MGH
# Maged Goubran, Robarts Research Institute
# Vivian He, Brigham and Women's Hospital
# Daniel Haehn, University of Pennsylvania
# Mike Halle, Brigham and Women's Hospital
# Marcus Hanwell, Kitware, Inc.
# Noby Hata, Brigham and Women's Hospital
#Katie Hayes, MGH
# Tamas Heffter, Queen's University
# Nicholas Herlambang, AZE, Ltd.
# Firdaus Janoos, Brigham and Women's Hospital
# Luis Ibanez, Kitware, Inc.
# Andrei Irimia, University of California, Los Angeles
# Hans Johnson, University of Iowa
# Ilknur Kabul, Kitware, Inc.
# Tina Kapur, Brigham and Women's Hospital
# Peter Karasev, Georgia Institute of Technology
# Ron Kikinis, Brigham and Women's Hospital
# Regina Kim, University of Iowa
# Ivan Kolesov, Georgia Institute of Technology
# Szymon Kostrzewski, Ecole Polytechnique Federale de Lausanne EPFL
# Dillon Lee, University of Utah
# Yinpeng Li, UNC-NIRAL
# Yifei Lou, Georgia Institute of Technology
# Mohsen Mahvash, Harvard Medical School (BWH and VA)
# Nikos Makris, Massachusetts General Hospital
# Katie Mastrogiacomo, Brigham and Women's Hospital
# Joy Matsui, University of Iowa
# Dominik Meier, Brigham and Women's Hospital
# Mikhail Milchenko, Washington University in St. Louis
# James Miller, GE Research
# Zach Mullen, Kitware, Inc.
# Isaiah Norton, Brigham and Women's Hospital
# Lauren O'Donnell, Brigham and Women's Hospital
# Danielle Pace, Kitware, Inc.
# Beatriz Paniagua, University of North Carolina at Chapel Hill
# Xenophon Papademetris, Yale University
# Kedar Patwardhan, GE Global Research
# Steve Pieper, Isomics, Inc.
# Csaba Pinter, Queen's University
# Wendy Plesniak, Brigham and Women's Hospital
#Clare Poynton, MIT
# Kilian Pohl, University of Pennsylvania
# Marcel Prastawa, University of Utah
# Sonia Pujol, Brigham and Women's Hospital
# Martin Rajchl, Robarts Research Institute
# Ramesh Sridharan, Massachusetts Institute of Technology
# Petter Risholm, Brigham and Women's Hospital
# Peter Savadjiev, Brigham and Women's Hospital
# Will Schroeder, Kitware, Inc.
# Andreas Schuh, University of Pennsylvania
# Mark Scully, University of Iowa
# Gregory Sharp, Massachusetts General Hospital
# Junichi Tokuda, Brigham and Women's Hospital
# Yundi Shi, University of North Carolina at Chapel Hill
# Matthew Toews, Brigham and Women's Hospital
# Nadya Shusharina, Massachusetts General Hospital
# Hao Su, Worcester Polytechnic Institute
# Suares Tamekue, Brigham and Women's Hospital
# Xiaodong Tao, GE Research
# Clement Vachet, UNC Chapel Hill
# Antonio Vega, Brigham and Women's Hospital
# Gopal Veni, University of Utah
# Bo Wang, University of Utah
# Andrew Wasam, CoSMo Software Inc.
# Demian Wassermann, Brigham and Women's Hospital
# Sandy Wells, Brigham and Women's Hospital
# Jason White, Brigham and Women's Hospital
# Mallika Winsor, Brigham and Women's Hospital
# Atsushi Yamada, Brigham and Women's Hospital
# Alexander Yarmarkovich, Isomics, Inc.
# Alexander Zaitsev, Brigham and Women's Hospital
# Ming Zhao, Sun Yat-Sen University Cancer Center, GuangZhou, China

File:PW-Boston-2011-group-photo-IMG 0065.JPG

2011-06-25T22:14:23Z

Lpfang:

2011 Summer Project Week

2011-06-25T22:13:36Z

Lpfang:

Back to [[Events]]

<gallery>
image:PW-MIT2011.png|Event logo
image:Panorama-summer-2011.png|[http://360.io/Afjepd Interactive Panorama of Project Week] (Works on chrome, maybe not on other browsers)
image:Pano2summer2011namic.jpg|[http://botview.appspot.com/viewer/pan0.swf?panoSrc=/media/4104002&FOV=52 Interactive Panorama of Project Week] (Needs flash)
image:PW-Boston-2011-Luping-Ron-IMG 0077.JPG|Friday afternoon :)
image:PW-Boston-2011-group-photo-IMG_0065.JPG|Friday afternoon :)

</gallery>

*'''Dates:''' June 20-24, 2011
*'''Location:''' MIT ([http://whereis.mit.edu/?go=34 Grier Rooms Location on MIT Campus Map])

==Preliminary Agenda==
==Agenda==

{|border="1"
|-style="background:#b0d5e6;color:#02186f"
!style="width:10%" |Time
!style="width:18%" |Monday, June 20
!style="width:18%" |Tuesday, June 21
!style="width:18%" |Wednesday, June 22
!style="width:18%" |Thursday, June 23
!style="width:18%" |Friday, June 24
|-
|
|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 Extension (Writing Tutorial) ([[media:AHM-2011-SlicerExtensions.pdf|pdf]], [[media:AHM-2011-SlicerExtensions.ppt|ppt]]) (Jean-Christophe Fillion-Robin)
'''10-11am''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] (Continued) <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>----------------------------------------<br>
'''11-12pm: <font color="#4020ff">Breakout Session:'''</font> [[2011 Summer Project Week Breakout Session Slicer4 Annotation|Slicer4 Annotations]] (Nicole Aucoin)<br>
[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''9am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Project Week Breakout Session: ITK|ITK]] (Luis Ibanez)
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''9am-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
<br>'''10:30am-12pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:DiffusionMRI|DiffusionMRI]]<br>
<br>[[MIT_Project_Week_Rooms#Star|Star Room]]
|'''10am-12pm:''' [[#Projects|Project Progress Updates]]
<br>[[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: <font color="#503020">Ron Kikinis: Welcome</font>'''
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''1:05-3:30pm:''' [[#Projects|Project Introductions]] (all Project Leads)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3:30-4:15pm''' Slicer4 Developers Guided Tour (Pieper) ([[media:2011 Summer-Slicer4.ppt|Slides]]). <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' [[2011 Project Week Breakout Session: Slicer4|Slicer 4 Core Modules Usability Review]] <br>
[[MIT_Project_Week_Rooms|Grier Room (Left)]]
<br>---<br>
'''4:15-5:00pm''' How to get DBP Data <br>
[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Room (Right)]]
|'''1-3pm: <font color="#4020ff">Breakout Session:'''</font><br> [http://wiki.slicer.org/slicerWiki/index.php/Slicer4:MultiVolumeContainer#Summer_2011_Project_Week_Breakout_Session Slicer4 MultiVolume Containers] (Nicole Aucoin)
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
<br>----------------------------------------<br>
'''3-4pm:''' [[Summer_2011_Tutorial_Contest|Tutorial Contest Presentations]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''4-5pm:''' [[2011 Summer Project Week Breakout Session VTKCharts|VTK Charts]] (Marcus Hanwell) ([[media:NA-MIC-VTK-Charts-2011.pdf|Slides]])
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Star Room]]
|'''12:45-1pm:''' [[Events:TutorialContestJune2011|Tutorial Contest Winner Announcement]]
<br>[[MIT_Project_Week_Rooms#Grier_34-401_AB|Grier Rooms]]
<br>----------------------------------------<br>
'''3-4pm: <font color="#4020ff">Breakout Session:'''</font><br>[[2011_Summer_Project_Week_Breakout_Session_EMRegistration|Inter-subject Registration for EM segmenter]]
<br>[[MIT_Project_Week_Rooms#Kiva_32-G449|Kiva Room]]
|'''1-4pm: <font color="#4020ff">Breakout Session:'''</font><br> [[2011 Summer Project Week Breakout Session:OpenIGTLink|OpenIGTLink]]
<br>[[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==

* Please make a link for your project to a new page based on the [[2011_Summer_Project_Week_Template| 2011 Summer Project Page Template]]

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

#[[2011_Summer_Project_Week_Segmentation_TBI|Segmentation of Longitudinal TBI data]] (Bo Wang, Jack Van Horn, Andrei Irimia, Micah Chambers, Marcel Prastawa, Guido Gerig)
#[[Multimodality Image Registration for TBI]] (Yifei Lou, Danielle Pace, Jack Van Horn, Micah Chambers)
#[[2011_Summer_Project_Week_White_Matter_Laterality|White Matter Laterality in Python/Slicer4]] (Lauren O'Donnell)
#[[2011_Summer_Project_Week_Intraoperative_Brain_Shift_Monitor|Intraoperative Brain Shift Monitor]] (Jason White, Alex Golby, Steve Pieper, Junichi Tokuda)
#[[2011_Summer_Project_Week_GBM_Masks|Obtaining and Evaluation of Glioblastoma Multiforme (GBM) Segmentation Masks]] (Jan Egger,Tina Kapur, Andriy Fedorov, Rivka Colen, Ron Kikinis, Alex Golby, Christopher Nimsky)
#[[2011_Summer_Project_Week_NerveSeg|Segmentation of Nerve and Nerve Ganglia in the Spine]] (Adrian Dalca, Giovanna Danagoulian, Ron Kikinis, Ehud Schmidt, Polina Golland)
#[[2011_Summer_Project_Week_Spine_Segmentation_And_Osteoporosis_Screening_CT|Spine Segmentation & Osteoporosis Screening In CT Imaging Studies]] (Anthony Blumfield)
#[[2011_Summer_Project_Week_Quantitative_Magnetic_Susceptibility_Mapping|Quantitative Magnetic Susceptibility Mapping ]] (Clare Poynton)

'''Radiation Therapy'''
#[[2011_Summer Project Week_Non-rigid_inter-patient_registration_of_bone_masks_derived_from_CT_for_Head_and_Neck_Cancer_Radiation_Therapy|Non-rigid, inter-patient registration of bone masks derived from CT for Head and Neck Cancer Radiation Therapy]] (Ivan Kolesov, Yi Gao, Gregory Sharp, Xiaodong Tao, Nadya Shusharina, Allen Tannenbaum)
#[[2011_Summer_Project_Week_Contouring_Gyne_Structures|Contouring of Anatomy Structures like Tumor, Bladder, Rectum and Sigmoid for Gynecological Brachytherapy]] (Tina Kapur, Akila Viswanathan, Jan Egger)
#[[2011_Summer_Project_Week_Slicer_DICOM_RT_Brachytherapy|Visualization of DICOM RT Planning Contours and Dose Distributions for Prostate and Gynecologic Brachytherapy in Slicer]] (Firdaus Janoos, Jan Egger, Greg Sharp, Andriy Fedorov, Tina Kapur)
#[[2011_Summer_Project__Week_DVH|Dose volume histograms in Slicer]] (Greg Sharp, Nadya Shusharina, Steve Pieper, Csaba Pinter, Tina Kapur)
#[[2011_Summer_Project__Week_DICOM_RT|Synthetic images, vector fields, RT structures and RT doses in Slicer and ITK]]. (Nadya Shusharina, Greg Sharp, Luis Ibanez, Steve Pieper)

'''Huntington's Disease'''
#[[2011_Summer_Project_Week_Iowa_Huntington's_disease_data_sharing | Iowa Huntington's Disease Data Sharing]] (Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week_normal_consistency_particles|Normal consistency in particle correspondence computation using great circles in principal spheres - Huntington's Disease]], (Beatriz Paniagua, Martin Styner, Sungkyu Jung, Mark Scully)
#[[2011_Summer_Project__Week_Shape_Analysis_UNC |SPHARM & particles shape analysis - Huntington's Disease]] (Lucile Bompard, Clement Vachet, Beatriz Paniagua, Martin Styner
#[[2011_Summer_Project_Week_long_shape_regression|Longitudinal Shape Regression - Huntington's Disease]] (James Fishbaugh, Marcel Prastawa, Guido Gerig, Hans Johnson)
#[[2011_Summer_Project_Week_DTIPrep|DTIPrep - "Study-specific Protocol" based automatic DWI/DTI quality control and preparation]] - Huntington's Disease (Mahshid Farzinfar, Clement Vachet, Joy Matsui, Martin Styner)
#[[2011_Summer_Project_Week_DTI_PairWise_Registration|DTI pair-wise registration module]] - Huntington's Disease (Clement Vachet, Joy Matsui, Mark Scully, Martin Styner)
#[[2011_Summer_Project_Week_DTI analysis_for_Huntington's_disease | DTI analysis for Huntington's disease]] (Gopal Veni, Ross Whitaker)

'''Atrial Fibrillation'''
#[[2011_Summer_Project_Week_RSS_for_AFib_Ablation|Robust Statistical Segmentation (RSS) for the Atrial Fibrillation Ablation Therapy]] (Yi Gao, Kedar Patwardhan, Steve Pieper, Wassim Haddad, and Allen Tannenbaum, Rob MacLeod, Josh Blauer, and Josh Cates)
#[[2011_Summer_Project_Week_Watersheds|Interactive Watersheds Segmentation Module for Slicer for Atrial Fibrillation and HN Cancer]] (Josh Cates, Ross Whitaker, Steve Pieper, Jim Miller, Nadya)

'''Device Integration with Slicer and General Image Guided Therapy'''
#[[2011_Summer_Project__Week_Wireless_Joystick|Wireless joystick controlling medical devices and software (e.g. Slicer4) in the operating room]] (Szymon Kostrzewski)
#[[2011_Summer_Project__Week_Live_Tracked_Ultrasound|Live Tracked Ultrasound with Slicer4 (Tamas Heffter)]]
#[http://wiki.na-mic.org/Wiki/index.php/Survey_stealthlink_openigtlink Surveying research teams interested in Open IGT Link support of Stealth Station (Nobuhiko Hata, Ron Kikinis)]
#[[2011_Summer_Project_Week_Needle_Detection_to_Control_Scanner_for_Prostate_Biopsy | Needle Detection to Control Scanner for Prostate Biopsy ]] (Atsushi Yamada, Loïc Cadour, Junichi Tokuda and Nobuhiko Hata)
#[[2011_Summer_Project_Week_Segementation_Reconstruction_Pericardial_Sac]] (Mohsen Mahvash, Noby Hata, Ron Kikinis)
#[[2011_Summer_Project_Week_4DUltrasound_HybridProbe_OsteoPlan|4D Ultrasound / Hybrid Probe / OsteoPlan]] (Laurent Chauvin, Noby Hata)
#[[2011_Summer_Project_Week_AMIGO|AMIGO]] (Mallika Winsor, Vivian He, Dan Kacher, Tina Kapur)
#[[2011_Summer_Project_Week_Patient_Mounted_Robot|Patient-mounted Robot Control using OpenIGTLink]] (Conor James Walsh, Maryam Shokri, Faye Wu)
#[[2011_Summer_project_Week_Open_Source_Electromagnetic_Trackers_using_OpenIGTLink|Open-source Electromagnetic Trackers using OpenIGTLink]] (Peter Traneus Anderson)

'''General Segmentation'''
#[[2011_Summer_Project_Week_Integrate_BRAINSCut_into_Slicer3]](Regina Kim, ... )
#[[2011_Summer_Project_Week_EMSegmentation_in_3D_Slicer4|EM Segmentation in 3D Slicer 4]] (Daniel Haehn, Dominique Belhachemi, Kilian Pohl)
#[[2011_Summer_Project_Week_Customizing_EMSegmenter_pipelines_for_brain_lesions | Customizing EMSegmenter pipelines for brain lesions]] (Dominique Belhachemi, Alexander Zaitsev, Kilian Pohl)
#[[2011_Summer_Project_Week_Plastimatch_for_EMSegmenter | Integrating Plastimatch into the EMSegmenter]] (Dominique Belhachemi, Kilian Pohl, Greg Sharp, Daniel Haehn)
#[[2011_Summer_Project_Week_Slicer_Extension_for_GLISTR | Slicer extension for GLiome Image SegmenTation and Registration (GLISTR)]] (Andreas Schuh, Daniel Haehn, Kilian Pohl)

'''General Registration'''
#[[2011_Summer_Project_Week__BRAINSFit_new_features_integration|Integrate new features into BRAINSFit]] (Andrey Fedorov, Hans Johnson, Mark Scully)
#[[2011_Summer_Project_Week__LANDWARP_integration|Integration of LANDWARP into interactive registration module]] (Andrey Fedorov, Greg Sharp, Nadya Shusharina)
#[[2011_Summer_Project_Week_Registration_of_mouse_brains|Registration of mouse brains]] (Francois Budin, Ipek Oguz, Martin Styner, Dominik Meier)
#[[NonRigidRegistrationThatAccommodatesResection|Demons Based Non-Rigid Registration that Accommodates Resection in 3D Slicer]] (Petter Risholm, Jim Miller, Sandy Wells)
#[[2011_Summer_Project_Week_SlidingOrganRegistrationFED|Integrate Fast Explicit Diffusion into Sliding Organ Registration module]] (Danielle Pace)
#[[2011_Summer_Project_Week_Image_Manifold_Learning_with_Spectral_Embedding_and_Laplacian_Eigenmaps|Image Manifold Learning with Spectral Embedding and Laplacian Eigenmaps]] (Ramesh Sridharan, Polina Golland)

'''General Diffusion Tractography'''
#[[2011_Summer_Project_Week_WMGeometry_Slicer4 | White matter geometry measures in Slicer 4]] (Peter Savadjiev)
#[[2011_Summer_Project_Week_re-parameterize_fiber|Re-parametrize fiber tracts for fiber statistics analysis]] (Yundi Shi, Clement Vachet, Benjamin Yvernault, Anuja Sharma, Martin Styner)
#[[2011_Summer_Project_Week_ODF_though_Fiber_Counting | ODF computation through fiber counting]] (Yinpeng Li, Ipek Oguz, Martin Styner)
#[[2011_Summer_Project_Week_Nifti_Support_for_Diffusion_Tensor_Images|Nifti Support for Diffusion Tensor Images]] (Demian)
#[[2011_Summer_Project_Week_Finishing_details_on_the_workflows_DICOM_full_brain_tractography_peritumoral|Finishing details on the workflows: DICOM->Full brain tractography / peritumoral]] (Demian)
#[[Summer_project_week_2011_Finsler_Streamlines|Adding streamlined tractography to the Finsler front propagation tractography toolkit]] (Antonio Tristán-Vega)
#[[2011_Summer_Project_Week_Slicer4_Tractography_Interaction_and_Display|Tractography Bundle/Cluster Interaction and Display in Slicer4]] (Isaiah Norton, Lauren O'Donnell, Demian Wasserman)
#[[2011_Summer_Project_Week_DTI_Volumetric_Tractography | DTI Volumetric Tractography]] (Steve Callahan, Mark Scully, Jim Miller)
#[[2011_Summer_Project_Week_DWI_Atlas | Slicer module for building an average population DWI Atlas]] (Ryan Eckbo, Sylvain Bouix)
#[[2011_Summer_Project_Week_DTI_Volumetric_Segmentation_for_Group_studies | DTI Volumetric Segmentation for Group studies]] (Gopal Veni, Ross Whitaker)

'''Vessels'''
#[[2011_Summer_Project_Week_SlicerVmtk4|The Vascular Modeling Toolkit in 3D Slicer 4]] (Daniel Haehn, Luca Antiga, Steve Pieper, Kilian Pohl, Ron Kikinis)
#[[2011_Summer_Project__Week_Stenosis_Detector|Stenosis Detector in 3D Slicer 4]] (Suares Tamekue, Daniel Haehn, Luca Antiga, Ron Kikinis)

'''Infrastructure'''
#[[2011_Summer_Project_Week_Annotation_Module|Annotation Module in Slicer4]] (Nicole Aucoin, Daniel Haehn)
#[[2011_Summer_Project_Week_RECIST|RECIST Slicer4 module]] (Nicole Aucoin)
#[[2011_Summer_Project_Week_Dicom2Nrrd|DicomToNrrdConverter refactoring]] ( Xiaodong Tao, Mark Scully)
#[[Summer_project_week_2011_Workflows_SOA|Workflows and Service Oriented Architecture Modules for Slicer4 as Extensions]] (Alexander Zaitsev, Wendy Plesniak, Charles Guttmann, Ron Kikinis)
#[[2011_Summer_Project__Week_DICOM_Networking|DICOM Networking interface for Slicer4]] (Steve Pieper, Nicole Aucoin, Noby Hata)
#[[2011_Summer_Project_Week_Automated_GUI_Testing| Automated GUI Testing (Sonia Pujol, Steve Pieper, Dave Partyka, Jean-Christophe Fillion-Robin, Xiaodong Tao)]]
#[[2011_Summer_Project_Week_FetchMI:_Slicer_integration_with_XNAT |FetchMI: Slicer integration with XNAT 1.5]] (Misha Milchenko, Wendy Plesniak)
#[[2011_Summer_Project_Week_Internationalization_of_Slicer|Internationalization of Slicer]] (Luping Fang, Steve Pieper, Daniel Haehn, Suares Tamekue, Jean-Christophe Fillion-Robin, Julien Finet, Yiming Ge, Ping Cao)

==Background==

We are pleased to announce the 13th PROJECT WEEK of hands-on research and development activity for applications in Image-Guided Therapy, Neuroscience, 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 28th 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], and [http://www.cimit.org CIMIT]. 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 20-24, 2011
*'''Location:''' MIT. [[Meeting_Locations:MIT_Grier_A_%26B|Grier Rooms A & B: 34-401A & 34-401B]].
*'''REGISTRATION:''' Please register [http://guest.cvent.com/d/sdqy0l/4W here]. Payment must be made by credit card.
*'''Registration Fee:''' $260 (covers the cost of breakfast, lunch and coffee breaks for the week).
*'''Hotel:''' Boston Marriott Cambridge, Two Cambridge Center, 50 Broadway, Cambridge, MA 02142. Group rate is $199/night plus tax. Book [http://www.marriott.com/hotels/travel/boscb?groupCode=jrbjrba&app=resvlink&fromDate=6/19/11&toDate=6/24/11 here] or call 1-617-494-6600 and mention that you are booking in the MIT Room Block. '''All reservations must be made by May 29, 2011 to receive the discounted rate.'''

== 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 28, 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 12, all participants to add a one line title of their project to #Projects
#By 3pm ET on Thursday June 9, 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 16: Create a directory for each project on the [[Engineering:SandBox|NAMIC Sandbox]] (Zack)
## 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.)
## 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. (Zack)
# 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.
## Projects to develop extension modules should work with the [http://viewvc.slicer.org/viewcvs.cgi/branches/Slicer-3-6/#dirlist Slicer-3-6 branch] (new code should not be checked into the branch).
## Projects to modify core behavior of slicer should be done on the [http://viewvc.slicer.org/viewcvs.cgi/trunk/ trunk].

==Registrants==

Do not add your name to this list- it is maintained by the organizers based on your paid registration (see Logistics for link)
# Peter Anderson, Retired
# Nicole Aucoin, Brigham and Women's Hospital
# Dominique Belhachemi, University of Pennsylvania
# Anthony Blumfiled, Radnostics
# Lucile Bompard, UNC NIRAL
# Sylvain Bouix, Brigham and Women's Hospital
# Francois Budin, UNC NIRAL
# Steve Callahan, University of Utah
# Joshua Cates, University of Utah
# Micah Chambers, Laboratory of NeuroImaging
# Laurent Chauvin, Brigham and Women's Hospital
# Rivka Colen, Brigham and Women's Hospital
# Nikos Chrisochoides, Old Dominion University
# Adrian Dalca, Massachusetts Institute of Technology
# Manasi Datar, University of Utah
# Colin Davey
# Ryan Eckbo, Brigham and Women's Hospital
# Jan Egger, University Hospital of Marburg
# Luping Fang, Zhejiang University of Technology, China
# Mahshid Farzinfar, University of North Carolina at Chapel Hill
# Andriy Fedorov, Brigham and Women's Hospital
# Jean-Christophe Fillion-Robin, Kitware, Inc.
# Julien Finet, Kitware, Inc.
# James Fishbaugh, University of Utah
# Yi Gao, Georgia Institute of Technology
# Greg Gardner, University of Utah
# Ronen Globinsky, Yale University
# Randy Gollub, MGH
# Maged Goubran, Robarts Research Institute
# Vivian He, Brigham and Women's Hospital
# Daniel Haehn, University of Pennsylvania
# Mike Halle, Brigham and Women's Hospital
# Marcus Hanwell, Kitware, Inc.
# Noby Hata, Brigham and Women's Hospital
#Katie Hayes, MGH
# Tamas Heffter, Queen's University
# Nicholas Herlambang, AZE, Ltd.
# Firdaus Janoos, Brigham and Women's Hospital
# Luis Ibanez, Kitware, Inc.
# Andrei Irimia, University of California, Los Angeles
# Hans Johnson, University of Iowa
# Ilknur Kabul, Kitware, Inc.
# Tina Kapur, Brigham and Women's Hospital
# Peter Karasev, Georgia Institute of Technology
# Ron Kikinis, Brigham and Women's Hospital
# Regina Kim, University of Iowa
# Ivan Kolesov, Georgia Institute of Technology
# Szymon Kostrzewski, Ecole Polytechnique Federale de Lausanne EPFL
# Dillon Lee, University of Utah
# Yinpeng Li, UNC-NIRAL
# Yifei Lou, Georgia Institute of Technology
# Mohsen Mahvash, Harvard Medical School (BWH and VA)
# Nikos Makris, Massachusetts General Hospital
# Katie Mastrogiacomo, Brigham and Women's Hospital
# Joy Matsui, University of Iowa
# Dominik Meier, Brigham and Women's Hospital
# Mikhail Milchenko, Washington University in St. Louis
# James Miller, GE Research
# Zach Mullen, Kitware, Inc.
# Isaiah Norton, Brigham and Women's Hospital
# Lauren O'Donnell, Brigham and Women's Hospital
# Danielle Pace, Kitware, Inc.
# Beatriz Paniagua, University of North Carolina at Chapel Hill
# Xenophon Papademetris, Yale University
# Kedar Patwardhan, GE Global Research
# Steve Pieper, Isomics, Inc.
# Csaba Pinter, Queen's University
# Wendy Plesniak, Brigham and Women's Hospital
#Clare Poynton, MIT
# Kilian Pohl, University of Pennsylvania
# Marcel Prastawa, University of Utah
# Sonia Pujol, Brigham and Women's Hospital
# Martin Rajchl, Robarts Research Institute
# Ramesh Sridharan, Massachusetts Institute of Technology
# Petter Risholm, Brigham and Women's Hospital
# Peter Savadjiev, Brigham and Women's Hospital
# Will Schroeder, Kitware, Inc.
# Andreas Schuh, University of Pennsylvania
# Mark Scully, University of Iowa
# Gregory Sharp, Massachusetts General Hospital
# Junichi Tokuda, Brigham and Women's Hospital
# Yundi Shi, University of North Carolina at Chapel Hill
# Matthew Toews, Brigham and Women's Hospital
# Nadya Shusharina, Massachusetts General Hospital
# Hao Su, Worcester Polytechnic Institute
# Suares Tamekue, Brigham and Women's Hospital
# Xiaodong Tao, GE Research
# Clement Vachet, UNC Chapel Hill
# Antonio Vega, Brigham and Women's Hospital
# Gopal Veni, University of Utah
# Bo Wang, University of Utah
# Andrew Wasam, CoSMo Software Inc.
# Demian Wassermann, Brigham and Women's Hospital
# Sandy Wells, Brigham and Women's Hospital
# Jason White, Brigham and Women's Hospital
# Mallika Winsor, Brigham and Women's Hospital
# Atsushi Yamada, Brigham and Women's Hospital
# Alexander Yarmarkovich, Isomics, Inc.
# Alexander Zaitsev, Brigham and Women's Hospital
# Ming Zhao, Sun Yat-Sen University Cancer Center, GuangZhou, China

2011 Summer Project Week Internationalization of Slicer

2011-06-24T01:15:49Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
Image:snapshot_es.png|Spanish Version
</gallery>

'''Full Title of Project'''
Internationalization of Slicer
==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>


1.We modified a few source codes in endoscopy module and this module can now be displayed in different language successfully.<br>
2.An sample translation template file is defined. Based on it, we had 6 language translations (Chinese, German, Hungarian, Russian, French and Spanish) from 6 volunteers. Thank them for their help.<br>
3.Language selection is input as an option when start Slicer. Usage: Slicer --language-select <language_code>. The screen snapshots are attached.<br>
In general, based on Qt, internationalization of Slicer can be implemented efficiently. The work of the project week gave the proof of concept.

</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-24T01:15:19Z

Lpfang: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
Image:snapshot_es.png|Spanish Version
</gallery>

'''Full Title of Project'''
Internationalization of Slicer
==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>


1.We modified a few source codes in endoscopy module and this module can now be displayed in different language successfully.
2.An sample translation template file is defined. Based on it, we had 6 language translations (Chinese, German, Hungarian, Russian, French and Spanish) from 6 volunteers. Thank them for their help.
3.Language selection is input as an option when start Slicer. Usage: Slicer --language-select <language_code>. The screen snapshots are attached.<br>
In general, based on Qt, internationalization of Slicer can be implemented efficiently. The work of the project week gave the proof of concept.

</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-24T01:04:31Z

Lpfang: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
Image:snapshot_es.png|Spanish Version
</gallery>

'''Full Title of Project'''
Internationalization of Slicer
==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>


1.We modified a few source codes in endoscopy module and this module can now be displayed in different language successfully.
2.An sample translation template file is defined. Based on it, we had 6 language translations (Chinese, German, Hungarian, Russian, French and Spanish) from 6 volunteers. Thank them for their help.
3.Language selection is input as an option when start Slicer. Usage: Slicer --language-select <language_code>. The screen snapshots are attached.
In general, based on Qt, internationalization of Slicer can be implemented efficiently. The work of the project week gave the proof of concept.

</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-23T22:44:13Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
Image:snapshot_es.png|Spanish Version
</gallery>

'''Full Title of Project'''
Internationalization of Slicer
==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

File:Snapshot es.png

2011-06-23T22:42:13Z

Lpfang:

2011 Summer Project Week Internationalization of Slicer

2011-06-23T22:41:21Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
Image:snapshot_es.png|French Version
</gallery>

'''Full Title of Project'''
Internationalization of Slicer
==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-23T19:08:44Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
</gallery>

'''Full Title of Project'''
Internationalization of Slicer
==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

File:Snapshot fr.png

2011-06-23T19:07:18Z

Lpfang:

File:Snapshot ru.png

2011-06-23T19:05:43Z

Lpfang:

File:Snapshot hu.png

2011-06-23T19:04:31Z

Lpfang:

File:Snapshot hu.PNG

2011-06-23T19:03:17Z

Lpfang:

2011 Summer Project Week Internationalization of Slicer

2011-06-23T19:02:03Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
Image:snapshot_hu.png|Hangarian Version
Image:snapshot_ru.png|Russian Version
Image:snapshot_fr.png|French Version
</gallery>

'''Full Title of Project'''

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

File:Snapshot de.png

2011-06-23T18:56:53Z

Lpfang:

2011 Summer Project Week Internationalization of Slicer

2011-06-23T18:56:09Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
Image:snapshot_de.png|German Version
</gallery>

'''Full Title of Project'''

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

File:Snapshot zh.png

2011-06-23T18:54:41Z

Lpfang:

File:Snapshot zh.PNG

2011-06-23T18:19:50Z

Lpfang:

2011 Summer Project Week Internationalization of Slicer

2011-06-23T18:13:29Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:snapshot_zh.png|Chinese Version
</gallery>

'''Full Title of Project'''

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge
* University of Szeged: Attila Nagy (remote participation from Hungary)

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
http://www.youtube.com/watch?v=lz9deRYwNFY

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:50:18Z

Lpfang: /* Key Investigators */

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:notfound.png|Interesting picture to be added...
</gallery>

'''Full Title of Project'''

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easy way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:48:38Z

Lpfang:

__NOTOC__
<gallery>
Image:PW-MIT2011.png|[[2011_Summer_Project_Week#Projects|Projects List]]
Image:notfound.png|Interesting picture to be added...
</gallery>

'''Full Title of Project'''

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easily way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:47:52Z

Lpfang: /* Delivery Mechanism */

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easily way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#Slicer Module
##Built-in:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:47:36Z

Lpfang: /* Delivery Mechanism */

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:47:10Z

Lpfang: /* References */

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:46:54Z

Lpfang:

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* BWH: Suares Tamekue
* UTC: Yiming Ge

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easily way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">

==References==
D’Avila A, Scanavacca M, Sosa E, Riskin JN, Reddy VY. Pericardial anatomy for the Interventional Electrophysiologist. J Cardiovasc Electrophysiol 2003;14:422-430

==Delivery Mechanism==



This work will be delivered to the NAMIC Kit as a

#NITRIC distribution
#Slicer Module
##Built-in:
##Extension -- commandline:
##Extension -- loadable:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:44:31Z

Lpfang: /* Key Investigator */

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:38:41Z

Lpfang:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:33:29Z

Lpfang:

2011 Summer Project Week Internationalization of Slicer

2011-06-17T16:31:46Z

Lpfang:

==Key Investigators==
* ZJUT: Luping Fang, Ping Cao
* Isomics: Steve Pieper
* UPenn: Daniel Haehn
* Kitware: Jean-Christophe Fillion-Robin, Julien Finet
* UTC: Yiming Ge

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>

The internationalization of an application is the process of making the application usable by people in countries other than one's own.The aim of this project is investigating the feasibility and approach of the internationalization of Slicer as painless as possible for Slicer and its extensions developers. Work will focus on the UI form, dynamic string display. Hopelly, the modules coded in either Python or C++ can be processed in an easily way.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>
Our approach is to based on the built-in internationalization feature of Qt, do some experiments on one UI form and two modules (one is developed by C++, the other is developed by Python) to find the localized methods applicable to Slicer 4. Finally, we hope to summarize the procedure and provide associated template.

</div>

<div style="width: 40%; float: left;">

<h3>Progress</h3>



</div>
</div>

<div style="width: 97%; float: left;">