https://www.na-mic.org/w/api.php?action=feedcontributions&feedformat=atom&user=HeibelNAMIC Wiki - User contributions [en]2026-04-09T09:41:49ZUser contributionsMediaWiki 1.33.0https://www.na-mic.org/w/index.php?title=Training:Workshop_Prerequisite&diff=26847Training:Workshop Prerequisite2008-06-13T13:33:59Z<p>Heibel: </p>
<hr />
<div>='''Preparation for the Workshop'''=<br />
<br />
The following components of the NA-MIC kit will be used during the workshop. Support will be provided as requested.<br />
<br />
* 1. '''Slicer3''': software application and open-source programming environment<br />
* 2. '''CMake''': cross-platform open-source build system<br />
* 3. '''Insight Segmentation and Registration Toolkit''' (ITK) environment<br />
* 4. '''Visualization Toolkit''' (VTK) environment<br />
* 5. '''Development packages'''<br />
* 6. '''Datasets'''<br />
<br />
='''Slicer3 Software''' =<br />
<br />
Please do the following two commands to download the source code and build Slicer3 on the computer that you will be bringing to the workshop: <br />
<br />
svn co http://www.na-mic.org/svn/Slicer3/branches/Munich2008 Slicer3<br />
<br />
./Slicer3/Scripts/getbuildtest.tcl<br />
<br />
Note'': Building Slicer can take up to '''2 hours'''.<br />
<br />
This will install the following packages:<br />
<br />
<br />
=='''CMake'''==<br />
CMake 2.6<br />
<br />
=='''ITK environment'''==<br />
<br />
ITK 3.6<br />
<br />
=='''VTK environment'''==<br />
<br />
VTK 5.2<br />
<br />
='''Development packages''' =<br />
<br />
=='''Linux'''==<br />
* gcc<br />
* gcc-c++<br />
* libX11 <br />
* libX11-devel (libX11-dev on Ubuntu)<br />
* libXt-devel (libXt-dev on Ubuntu)<br />
* opengl/mesa (libgl1-mesa-dev on Ubuntu)<br />
* libncurses5-dev<br />
Below is a Ubuntu one line install:<br />
<br />
sudo apt-get install subversion cvs tcl8.4 gcc g++ libX11-dev libXt-dev libxext-dev libgl1-mesa-dev libncurses5-dev tcsh<br />
<br />
Note: The packages names below correspond to Ubuntu 7.04. Please ensure that you use the appropriate package names for your distribution.<br />
Also, be sure you have OpenGL and the GLX extension to X working. To check the installation, it is usually enough to confirm that the command 'glxgears' runs with no errors.<br />
<br />
== '''Windows''' ==<br />
* Developer Studio 8 2005 ( if installed in the default locations in "c:/Program Files" it will be detected by the build script automatically (you need to edit slicer_variables.tcl to point to the installation)).<br />
* [http://www.cygwin.com Cygwin] with the following 5 packages<br />
**tcltk (''Libs -> tcltk: TCL/Tk libraries'')<br />
**svn (''Devel -> subversion: A version control system'')<br />
**cvs (''Devel -> cvs: Concurrent Version System'')<br />
**unzip (''Archive -> unzip: A utility for uinpacking zip files'')<br />
**curl (''Web -> curl: Command line tool for transferring files with HTTP, HTTPS, FTP, etc.'')<br />
Note: CMake and VTK will not work on a FAT formatted disk (use NTFS).<br />
<br />
== '''Apple Mac OS X''' ==<br />
<br />
For Mac OS 10.4.10 install the following from the OS disks (not installed by default on new machines):<br />
* Xcode Tools (OS Disk 1, default window)<br />
* X11: also on OS Disk 1, but you need to scroll down and find the Optional Installs installer and select X11 under Applications. See [http://porting.openoffice.org/mac/faq/installing/X11.html step-by-step instructions].<br />
* X11SDK - from OS Disk 1, Xcode Tools/Packages/X11SDK.pkg<br />
* Subversion. Installation [http://downloads.open.collab.net/binaries.html options here]. Get the latest svn version for compatibility with the server and be sure your client includes SSL (so it can access https repositories).<br />
<br />
='''Datasets'''=<br />
Please download the following datasets for the hands-on sessions: <br />
<br />
*[http://www.na-mic.org/Wiki/index.php/Image:SlicerSampleVisualization.tar.gz SlicerSampleVisualization.tar.gz ]<br />
<br />
*[http://www.na-mic.org/Wiki/index.php/Image:AutomaticSegmentation.tar.gz AutomaticSegmentation.tar.gz]<br />
<br />
*[http://www.na-mic.org/Wiki/index.php/Image:HelloWorld_Plugin.tar.gz HelloWorld_Plugin.tar.gz ]<br />
<br />
*[http://www.na-mic.org/Wiki/index.php/Image:HelloWorld_Plugin.zip HelloWorld_Plugin.zip ]</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=248742008 June Workshop Germany2008-05-19T09:04:53Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
<br />
==Sponsors==<br />
<gallery perrow="3" widths="150px"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:CAMP_logo_blue.png|[http://wwwnavab.in.tum.de/WebHome Computer Aided Medical Procedures, TU Munich]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/ Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery><br />
<br />
<br />
*'''The workshop has been confirmed and the invitation will be send out on Monday, May 19'''<br />
*June 15-17, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
=Program=<br />
Arrival: Sunday, June 15<br />
{| border="1" cellpadding="5"<br />
|- style="background:#ebeced; color:black" align="left" <br />
| style="width:20%" | '''Time'''<br />
| style="width:40%" | '''Monday, June 16'''<br />
| style="width:40%" | '''Tuesday, June 17''' <br />
|-<br />
| style="background:#ffffdd; color:black"| 08.00-08.30<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
|-<br />
| style="background:#ffffdd; color:black"| 08.30-10.00<br />
| style="background:#b4d597; color:#522200"| <br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
| style="background:#b4d597; color:#522200"| <br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Pace, Hata, Pieper)<br />
** IGT Workflows (Pace)<br />
** Application specific modules: Neuro, MRIg Prostate, Cardiac 3D US (Hata)<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.00-10.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.30-12.30<br />
| style="background:#b4d597; color:#522200"|<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://vtk.org VTK] (Barre)<br />
** [http://kwwidgets.org KWWidgets] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
| style="background:#b4d597; color:#522200"| <br />
* Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
|-<br />
| style="background:#ffffdd; color:black"| 12.30-13.30<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
|-<br />
| style="background:#ffffdd; color:black"| 13.30-15.00<br />
| style="background:#b4d597; color:#522200"| <br />
*Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
| style="background:#b4d597; color:#522200"| <br />
*Plug-ins for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 1 (Pujol)<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.00-15.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.30-18.00<br />
| style="background:#b4d597; color:#522200"| <br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
| style="background:#b4d597; color:#522200"| <br />
*15.30-17.30 Plug-ins continued<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 2 (Pujol)<br />
* 17.30-18.00 Registration in Slicer 3 (Jomier)<br />
|-<br />
| style="background:#ffffdd; color:black"| 18.00-19.00<br />
| style="background:#b4d597; color:#522200"| <br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
| style="background:#b4d597; color:#522200"| <br />
* 18.00-18.15 Closing remarks (Navab, Kikinis)<br />
|-<br />
| style="background:#ffffdd; color:black"| 19.00-open<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
|}<br />
<br />
= Prerequisites: Hardware and Software=<br />
Participants are required to install the following components on their laptop in preparation for the workshop. <br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
* Working compiler (gcc, gcc-c++ or visual studio)<br />
* Datasets: [http://www.na-mic.org/Wiki/index.php/Image:SlicerSampleVisualization.tar.gz SlicerSampleVisualization.tar.gz] and [[Media:HelloWorld.zip|HelloWorld.zip]].<br />
<br />
Note: <br />
We recommend a minimum of 2 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory.<br />
<br />
Windows XP, Linux (x86 and x86_64) and Darwin (ppc and x86) are supported.<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
=Venue and Logistics=<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Information on Public Transport for Local Travel==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the [http://en.wikipedia.org/wiki/Munich_International_Airport Munich Airport]'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=244172008 June Workshop Germany2008-05-07T14:23:42Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
<br />
==Sponsors==<br />
<gallery perrow="6" widths="100px"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:CAMP_logo_blue.png|[http://wwwnavab.in.tum.de/WebHome Computer Aided Medical Procedures, TU Munich]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/ Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery><br />
<br />
<br />
*'''Please note that this workshop is still pending approval by DFG'''<br />
*June 15-17, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
=Program=<br />
Arrival: Sunday, June 15<br />
{| border="1" cellpadding="5"<br />
|- style="background:#ebeced; color:black" align="left" <br />
| style="width:20%" | '''Time'''<br />
| style="width:40%" | '''Monday, June 16'''<br />
| style="width:40%" | '''Tuesday, June 17''' <br />
|-<br />
| style="background:#ffffdd; color:black"| 08.00-08.30<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
|-<br />
| style="background:#ffffdd; color:black"| 08.30-10.00<br />
| style="background:#b4d597; color:#522200"| <br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
| style="background:#b4d597; color:#522200"| <br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Pace, Hata, Pieper)<br />
** IGT Workflows (Pace)<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.00-10.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.30-12.30<br />
| style="background:#b4d597; color:#522200"|<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
| style="background:#b4d597; color:#522200"| <br />
* Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
|-<br />
| style="background:#ffffdd; color:black"| 12.30-13.30<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
|-<br />
| style="background:#ffffdd; color:black"| 13.30-15.00<br />
| style="background:#b4d597; color:#522200"| <br />
*Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
| style="background:#b4d597; color:#522200"| <br />
*Plug-ins for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 1 (Pujol)<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.00-15.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.30-18.00<br />
| style="background:#b4d597; color:#522200"| <br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
| style="background:#b4d597; color:#522200"| <br />
*15.30-17.30 Plug-ins continued<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 2 (Pujol)<br />
* 17.30-18.00 Registration in Slicer 3 <br />
|-<br />
| style="background:#ffffdd; color:black"| 18.00-19.00<br />
| style="background:#b4d597; color:#522200"| <br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
| style="background:#b4d597; color:#522200"| <br />
* 18.00-18.15 Closing remarks (Navab, Kikinis)<br />
|-<br />
| style="background:#ffffdd; color:black"| 19.00-open<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
|}<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
=Venue and Logistics=<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Information on Public Transport for Local Travel==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=244162008 June Workshop Germany2008-05-07T14:18:21Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
<br />
==Sponsors==<br />
<gallery perrow="6" widths="100px"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:CAMP_logo_blue.png|[http://wwwnavab.in.tum.de/WebHome Computer Aided Medical Procedures]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/ Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery><br />
<br />
<br />
*'''Please note that this workshop is still pending approval by DFG'''<br />
*June 15-17, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
=Program=<br />
Arrival: Sunday, June 15<br />
{| border="1" cellpadding="5"<br />
|- style="background:#ebeced; color:black" align="left" <br />
| style="width:20%" | '''Time'''<br />
| style="width:40%" | '''Monday, June 16'''<br />
| style="width:40%" | '''Tuesday, June 17''' <br />
|-<br />
| style="background:#ffffdd; color:black"| 08.00-08.30<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
|-<br />
| style="background:#ffffdd; color:black"| 08.30-10.00<br />
| style="background:#b4d597; color:#522200"| <br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
| style="background:#b4d597; color:#522200"| <br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Pace, Hata, Pieper)<br />
** IGT Workflows (Pace)<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.00-10.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.30-12.30<br />
| style="background:#b4d597; color:#522200"|<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
| style="background:#b4d597; color:#522200"| <br />
* Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
|-<br />
| style="background:#ffffdd; color:black"| 12.30-13.30<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
|-<br />
| style="background:#ffffdd; color:black"| 13.30-15.00<br />
| style="background:#b4d597; color:#522200"| <br />
*Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
| style="background:#b4d597; color:#522200"| <br />
*Plug-ins for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 1 (Pujol)<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.00-15.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.30-18.00<br />
| style="background:#b4d597; color:#522200"| <br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
| style="background:#b4d597; color:#522200"| <br />
*15.30-17.30 Plug-ins continued<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 2 (Pujol)<br />
* 17.30-18.00 Registration in Slicer 3 <br />
|-<br />
| style="background:#ffffdd; color:black"| 18.00-19.00<br />
| style="background:#b4d597; color:#522200"| <br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
| style="background:#b4d597; color:#522200"| <br />
* 18.00-18.15 Closing remarks (Navab, Kikinis)<br />
|-<br />
| style="background:#ffffdd; color:black"| 19.00-open<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
|}<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
=Venue and Logistics=<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Information on Public Transport for Local Travel==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=244152008 June Workshop Germany2008-05-07T14:16:20Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
<br />
==Sponsors==<br />
<gallery perrow="6" widths="100px"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:CAMP_logo_blue.png|[http://wwwnavab.in.tum.de/WebHome Computer Aided Medical Procedures]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery><br />
<br />
<br />
*'''Please note that this workshop is still pending approval by DFG'''<br />
*June 15-17, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
=Program=<br />
Arrival: Sunday, June 15<br />
{| border="1" cellpadding="5"<br />
|- style="background:#ebeced; color:black" align="left" <br />
| style="width:20%" | '''Time'''<br />
| style="width:40%" | '''Monday, June 16'''<br />
| style="width:40%" | '''Tuesday, June 17''' <br />
|-<br />
| style="background:#ffffdd; color:black"| 08.00-08.30<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
|-<br />
| style="background:#ffffdd; color:black"| 08.30-10.00<br />
| style="background:#b4d597; color:#522200"| <br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
| style="background:#b4d597; color:#522200"| <br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Pace, Hata, Pieper)<br />
** IGT Workflows (Pace)<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.00-10.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.30-12.30<br />
| style="background:#b4d597; color:#522200"|<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
| style="background:#b4d597; color:#522200"| <br />
* Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
|-<br />
| style="background:#ffffdd; color:black"| 12.30-13.30<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
|-<br />
| style="background:#ffffdd; color:black"| 13.30-15.00<br />
| style="background:#b4d597; color:#522200"| <br />
*Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
| style="background:#b4d597; color:#522200"| <br />
*Plug-ins for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 1 (Pujol)<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.00-15.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.30-18.00<br />
| style="background:#b4d597; color:#522200"| <br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
| style="background:#b4d597; color:#522200"| <br />
*15.30-17.30 Plug-ins continued<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 2 (Pujol)<br />
* 17.30-18.00 Registration in Slicer 3 <br />
|-<br />
| style="background:#ffffdd; color:black"| 18.00-19.00<br />
| style="background:#b4d597; color:#522200"| <br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
| style="background:#b4d597; color:#522200"| <br />
* 18.00-18.15 Closing remarks (Navab, Kikinis)<br />
|-<br />
| style="background:#ffffdd; color:black"| 19.00-open<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
|}<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
=Venue and Logistics=<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Information on Public Transport for Local Travel==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=244142008 June Workshop Germany2008-05-07T14:15:17Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
<br />
==Sponsors==<br />
<gallery perrow="3"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:CAMP_logo_blue.png|[http://wwwnavab.in.tum.de/WebHome Computer Aided Medical Procedures]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery><br />
<br />
<br />
*'''Please note that this workshop is still pending approval by DFG'''<br />
*June 15-17, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
=Program=<br />
Arrival: Sunday, June 15<br />
{| border="1" cellpadding="5"<br />
|- style="background:#ebeced; color:black" align="left" <br />
| style="width:20%" | '''Time'''<br />
| style="width:40%" | '''Monday, June 16'''<br />
| style="width:40%" | '''Tuesday, June 17''' <br />
|-<br />
| style="background:#ffffdd; color:black"| 08.00-08.30<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
|-<br />
| style="background:#ffffdd; color:black"| 08.30-10.00<br />
| style="background:#b4d597; color:#522200"| <br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
| style="background:#b4d597; color:#522200"| <br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Pace, Hata, Pieper)<br />
** IGT Workflows (Pace)<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.00-10.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.30-12.30<br />
| style="background:#b4d597; color:#522200"|<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
| style="background:#b4d597; color:#522200"| <br />
* Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
|-<br />
| style="background:#ffffdd; color:black"| 12.30-13.30<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
|-<br />
| style="background:#ffffdd; color:black"| 13.30-15.00<br />
| style="background:#b4d597; color:#522200"| <br />
*Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
| style="background:#b4d597; color:#522200"| <br />
*Plug-ins for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 1 (Pujol)<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.00-15.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.30-18.00<br />
| style="background:#b4d597; color:#522200"| <br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
| style="background:#b4d597; color:#522200"| <br />
*15.30-17.30 Plug-ins continued<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 2 (Pujol)<br />
* 17.30-18.00 Registration in Slicer 3 <br />
|-<br />
| style="background:#ffffdd; color:black"| 18.00-19.00<br />
| style="background:#b4d597; color:#522200"| <br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
| style="background:#b4d597; color:#522200"| <br />
* 18.00-18.15 Closing remarks (Navab, Kikinis)<br />
|-<br />
| style="background:#ffffdd; color:black"| 19.00-open<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
|}<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
=Venue and Logistics=<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Information on Public Transport for Local Travel==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=244132008 June Workshop Germany2008-05-07T14:14:31Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
<br />
==Sponsors==<br />
<gallery perrow="6"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
Image::CAMP_logo_blue.png|[http://wwwnavab.in.tum.de/WebHome Computer Aided Medical Procedures]<br />
</gallery><br />
<br />
<br />
*'''Please note that this workshop is still pending approval by DFG'''<br />
*June 15-17, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
=Program=<br />
Arrival: Sunday, June 15<br />
{| border="1" cellpadding="5"<br />
|- style="background:#ebeced; color:black" align="left" <br />
| style="width:20%" | '''Time'''<br />
| style="width:40%" | '''Monday, June 16'''<br />
| style="width:40%" | '''Tuesday, June 17''' <br />
|-<br />
| style="background:#ffffdd; color:black"| 08.00-08.30<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
| style="background:#ccdd97; color:#522200"| Breakfast<br />
|-<br />
| style="background:#ffffdd; color:black"| 08.30-10.00<br />
| style="background:#b4d597; color:#522200"| <br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
| style="background:#b4d597; color:#522200"| <br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Pace, Hata, Pieper)<br />
** IGT Workflows (Pace)<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.00-10.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 10.30-12.30<br />
| style="background:#b4d597; color:#522200"|<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
| style="background:#b4d597; color:#522200"| <br />
* Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
|-<br />
| style="background:#ffffdd; color:black"| 12.30-13.30<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
| style="background:#ccdd97; color:#522200"| Lunch<br />
|-<br />
| style="background:#ffffdd; color:black"| 13.30-15.00<br />
| style="background:#b4d597; color:#522200"| <br />
*Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
| style="background:#b4d597; color:#522200"| <br />
*Plug-ins for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 1 (Pujol)<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.00-15.30<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
| style="background:#ccdd97; color:#522200"| Coffee Break<br />
|-<br />
| style="background:#ffffdd; color:black"| 15.30-18.00<br />
| style="background:#b4d597; color:#522200"| <br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
| style="background:#b4d597; color:#522200"| <br />
*15.30-17.30 Plug-ins continued<br />
** Programming into Slicer3 - [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] Part 2 (Pujol)<br />
* 17.30-18.00 Registration in Slicer 3 <br />
|-<br />
| style="background:#ffffdd; color:black"| 18.00-19.00<br />
| style="background:#b4d597; color:#522200"| <br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
| style="background:#b4d597; color:#522200"| <br />
* 18.00-18.15 Closing remarks (Navab, Kikinis)<br />
|-<br />
| style="background:#ffffdd; color:black"| 19.00-open<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
| style="background:#ccdd97; color:#522200"| Dinner<br />
|}<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
=Venue and Logistics=<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Information on Public Transport for Local Travel==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.</div>Heibelhttps://www.na-mic.org/w/index.php?title=File:CAMP_logo_blue.png&diff=24412File:CAMP logo blue.png2008-05-07T14:13:06Z<p>Heibel: </p>
<hr />
<div></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=243342008 June Workshop Germany2008-05-01T16:41:36Z<p>Heibel: /* Day 1 */</p>
<hr />
<div>__NOTOC__<br />
<br />
*'''Please note that this workshop is still tentative pending pending approval'''<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will need to compile the software before coming to the meeting. The NA-MIC kit is tested for multiple platforms including Linux, Windows XP and Mac OSX. Either of those platforms are acceptable and welcome for the work during the workshop.<br />
<br />
==Application==<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experience with the NA-MIC kit<br />
<br />
Please send the applications to [mailto:heibel@cs.tum.edu Hauke Heibel].<br />
<br />
Since the invitation of DFG serves as a confirmation for the participation, any travel plans should be scheduled after receiving it.<br />
<br />
==Schedule==<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
<br />
<br />
==Program==<br />
===Day 1===<br />
'''Morning'''<br />
*08:00-08:30 Breakfast<br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
*10.00 - 10:30 Coffee Break<br />
*10.30-12.30 How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
*12:30-13:30 Lunch<br />
<br />
'''Afternoon'''<br />
*13.30-15.00 Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
* 15.00 - 15:30 Coffee Break<br />
*15.00-18.00<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
*18.00-18.45<br />
** [http://www.mitk.org/ MITK] (somebody from the [http://www.dkfz.de/en/mbi/index.html DKFZ])<br />
<br />
'''Evening'''<br />
* 19:00 Dinner<br />
<br />
===Day 2===<br />
'''Morning'''<br />
* 08:00-08:30 Breakfast<br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** IGT Workflows (Pace)<br />
* 10:00-10:30 Coffee Break<br />
* 10.30-12.30 Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
* 12:30-13:30 Lunch<br />
<br />
'''Afternoon'''<br />
* 13.30-15.00 Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
* 15:00-15:30 Coffee Break<br />
* 15.30-18.15 Plug-ins continued<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] (Pujol)<br />
* 18.15-18.30 Closing remarks (Navab, Kikinis)<br />
<br />
'''Evening'''<br />
* 19:00 Dinner<br />
<br />
== Prerequisites: Hardware and Software==<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
==Faculty==<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
==Planning==<br />
<br />
===T-cons===<br />
Phone: +1-218-936-1100, <br />
<br />
PIN: 23869 #<br />
<br />
===T con Minutes===<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
==Sponsors==<br />
<gallery perrow="5"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=243332008 June Workshop Germany2008-05-01T16:37:56Z<p>Heibel: /* Day 1 */</p>
<hr />
<div>__NOTOC__<br />
<br />
*'''Please note that this workshop is still tentative pending pending approval'''<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will need to compile the software before coming to the meeting. The NA-MIC kit is tested for multiple platforms including Linux, Windows XP and Mac OSX. Either of those platforms are acceptable and welcome for the work during the workshop.<br />
<br />
==Application==<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experience with the NA-MIC kit<br />
<br />
Please send the applications to [mailto:heibel@cs.tum.edu Hauke Heibel].<br />
<br />
Since the invitation of DFG serves as a confirmation for the participation, any travel plans should be scheduled after receiving it.<br />
<br />
==Schedule==<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
<br />
<br />
==Program==<br />
===Day 1===<br />
'''Morning'''<br />
*08:00-08:30 Breakfast<br />
*08.30-08.45 Welcome (Navab, Kikinis)<br />
*08.45-10.00 Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
*10.00 - 10:30 Coffee Break<br />
*10.30-12.30 How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
*12:30-13:30 Lunch<br />
<br />
'''Afternoon'''<br />
*13.30-15.00 Slicer3<br />
** [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
* 15.00 - 15:30 Coffee Break<br />
*15.00-18.00<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
18.00-18.45<br />
** [http://www.mitk.org/ MITK]<br />
<br />
'''Evening'''<br />
* 19:00 Dinner<br />
<br />
===Day 2===<br />
'''Morning'''<br />
* 08:00-08:30 Breakfast<br />
* 08.30-10.00 Slicer3 IGT<br />
** Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** IGT Workflows (Pace)<br />
* 10:00-10:30 Coffee Break<br />
* 10.30-12.30 Slicer 3 IGT continued<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
* 12:30-13:30 Lunch<br />
<br />
'''Afternoon'''<br />
* 13.30-15.00 Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
* 15:00-15:30 Coffee Break<br />
* 15.30-18.15 Plug-ins continued<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a "hello world" plug-in]] (Pujol)<br />
* 18.15-18.30 Closing remarks (Navab, Kikinis)<br />
<br />
'''Evening'''<br />
* 19:00 Dinner<br />
<br />
== Prerequisites: Hardware and Software==<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
==Faculty==<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
==Planning==<br />
<br />
===T-cons===<br />
Phone: +1-218-936-1100, <br />
<br />
PIN: 23869 #<br />
<br />
===T con Minutes===<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
==Sponsors==<br />
<gallery perrow="5"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=242792008 June Workshop Germany2008-04-29T17:11:15Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
<br />
*'''Please note that this workshop is still tentative pending pending approval'''<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will need to compile the software before coming to the meeting. The NA-MIC kit is tested for multiple platforms including Linux, Windows XP and Mac OSX. Either of those platforms are acceptable and welcome for the work during the workshop.<br />
<br />
==Application==<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experience with the NA-MIC kit<br />
<br />
Please send the applications to [mailto:heibel@cs.tum.edu Hauke Heibel].<br />
<br />
Since the invitation of DFG serves as a confirmation for the participation, any travel plans should be scheduled after receiving it.<br />
<br />
==Schedule==<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
<br />
<br />
==Program==<br />
===Day 1===<br />
'''Morning'''<br />
<br />
*08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
* 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
<br />
'''Afternoon'''<br />
* 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
* [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
* 15.00 - 15:30 Coffee Break<br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
<br />
'''Evening'''<br />
* 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
===Day 2===<br />
'''Morning'''<br />
* 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
* 10:00-10:30 Coffee Break<br />
* I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
* [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
* CUDA based volume rendering (Hata)<br />
* Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
'''Afternoon'''<br />
* 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
* 15:00-15:30 Coffee Break<br />
* [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
'''Evening'''<br />
* 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
== Prerequisites: Hardware and Software==<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
==Faculty==<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
==Planning==<br />
<br />
===T-cons===<br />
Phone: +1-218-936-1100, <br />
<br />
PIN: 23869 #<br />
<br />
===T con Minutes===<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
==Sponsors==<br />
<gallery perrow="5"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=242712008 June Workshop Germany2008-04-29T16:54:55Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
<br />
*'''Please note that this workshop is still tentative pending pending approval'''<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
==Introduction==<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected to be sponsored by the DFG. The target audience for this workshop are scientists with an engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is well-suited for both academic and commercial activities.<br />
<br />
The participants will receive an overview of the software libraries, the end-user applications, and documentation that comprise the NA-MIC kit. The curriculum is '''hands-on''' which means that participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited in order to ensure quality interactions between the faculty and participants.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Faculty and participants are expected to arrive at the venue on Sunday the 15th to allow the workshop to begin on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. In addition to the workshop program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get '''reimbursed for travel and accommodation costs'''.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will need to compile the software before coming to the meeting. The NA-MIC kit is tested for multiple platforms including Linux, Windows XP and Mac OSX. Either of those platforms are acceptable and welcome for the work during the workshop.<br />
<br />
==Application==<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experience with the NA-MIC kit<br />
<br />
Please send the applications to [mailto:heibel@cs.tum.edu Hauke Heibel].<br />
<br />
==Schedule==<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
<br />
<br />
==Program==<br />
===Day 1===<br />
'''Morning'''<br />
<br />
*08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
* 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
<br />
'''Afternoon'''<br />
* 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
* [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
* 15.00 - 15:30 Coffee Break<br />
* [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
* [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
<br />
'''Evening'''<br />
* 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
===Day 2===<br />
'''Morning'''<br />
* 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
* 10:00-10:30 Coffee Break<br />
* I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
* [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
* CUDA based volume rendering (Hata)<br />
* Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
'''Afternoon'''<br />
* 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
* 15:00-15:30 Coffee Break<br />
* [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
'''Evening'''<br />
* 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
== Prerequisites: Hardware and Software==<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
==Faculty==<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
*Local Host: Nassir Navab<br />
<br />
==Planning==<br />
<br />
===T-cons===<br />
Phone: +1-218-936-1100, <br />
<br />
PIN: 23869 #<br />
<br />
===T con Minutes===<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
==Sponsors==<br />
<gallery perrow="5"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240902008 June Workshop Germany2008-04-26T11:06:17Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, pending approval<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected that it will be sponsored by the DFG. The curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited to a relatively small number in order to ensure good interactions.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery perrow="5"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240892008 June Workshop Germany2008-04-26T11:04:35Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, pending approval<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected that it will be sponsored by the DFG. The curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited to a relatively small number in order to ensure good interactions.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery perrow="5"><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240882008 June Workshop Germany2008-04-26T11:02:39Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, pending approval<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected that it will be sponsored by the DFG. The curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited to a relatively small number in order to ensure good interactions.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240872008 June Workshop Germany2008-04-26T11:02:20Z<p>Heibel: /* Sponsors */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, pending approval<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This is a hands-on workshop about the NA-MIC kit. The workshop is intended for participants from within Germany and it is expected that it will be sponsored by the DFG. The curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below. Attendance is limited to a relatively small number in order to ensure good interactions.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. German citizenship is not required. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
In regard to the ticket you need for local travel: you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
'''Coming from the Munich Airport'''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
Image:DFG zweizeilig sw.jpg|[http://www.dfg.de/ DFG<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=File:DFG_zweizeilig_sw.jpg&diff=24086File:DFG zweizeilig sw.jpg2008-04-26T11:01:24Z<p>Heibel: </p>
<hr />
<div></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240672008 June Workshop Germany2008-04-25T14:58:16Z<p>Heibel: /* Note */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
== Note ==<br />
There has been a mistake regarding possible applicants. Actually everybody from within Germany may apply, i.e. you do not have to have the German citizenship!<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240662008 June Workshop Germany2008-04-25T14:57:43Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
== Note ==<br />
There has been a mistake regarding possible applicants. Actually everybody from within Germany may apply, i.e. you do not have to have the Germany citizenship!<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240652008 June Workshop Germany2008-04-25T14:56:51Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
Note: There has been a mistake regarding the possible applications. Actually everybody from within Germany may apply, i.e. you do not have to have the Germany citizenship!<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=240582008 June Workshop Germany2008-04-25T14:49:10Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications from within Germany can be considered. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=239352008 June Workshop Germany2008-04-21T13:02:17Z<p>Heibel: /* Schedule */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications of German citizens can be considered. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=239342008 June Workshop Germany2008-04-21T13:02:01Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (extended): May 1st, 2008.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for both academic or commercial activities.<br />
<br />
The participants will receive an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. The curriculum is '''hands-on'''! Participants are required to attend the workshop with a suitable laptop, preloaded with the software and sample data as specified below.<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that needs to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on-board graphic memory. You will have to have your compile environment set up and the initial compilations performed. The NA-MIC kit is running on Linux, Windows XP and Mac OSX. Either of those platforms are acceptable for the work during the workshop.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG], only applications of German citizens can be considered. Multiple applications from single institutes are possible but the primary intention is to achieve a wide-spread distribution over many institutes. Finally each person attending, will have to pay '''''120€''''' for participating. This fee will be used for partially covering the costs for food.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of research/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning=<br />
<br />
==T-cons==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==T con Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
==Travel Information ==<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=238572008 June Workshop Germany2008-04-16T18:00:08Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (the earlier the better): April 21th, 2008<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay '''''120€''''' for participating.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of reaserch/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=238562008 June Workshop Germany2008-04-16T17:59:38Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (the earlier the better): April 21th, 2008<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay 120€ for participating.<br />
<br />
The applications should include:<br />
* Name<br />
* Address (to which the invitation will be sent)<br />
* Field of reaserch/work<br />
* Previous experiences with the NA-MIC kit<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=238452008 June Workshop Germany2008-04-15T13:59:31Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 15-17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (the earlier the better): April 21th, 2008<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay 120€ for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae (optional)<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=237222008 June Workshop Germany2008-04-09T14:31:00Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
*When: June 16/17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
*Application deadline (the earlier the better): April 20th, 2008<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay 120€ for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae (optional)<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=237212008 June Workshop Germany2008-04-09T14:19:42Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay 120€ for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae (optional)<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=236862008 June Workshop Germany2008-04-08T07:13:15Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham]<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay 120€ for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=236852008 June Workshop Germany2008-04-08T07:12:23Z<p>Heibel: /* Application */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay 120€ for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=235382008 June Workshop Germany2008-04-02T13:57:50Z<p>Heibel: /* Day 2 */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:30 Dinner (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=235372008 June Workshop Germany2008-04-02T13:57:14Z<p>Heibel: /* Day 2 */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast (at earliest at 7:00 am)<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** 10:00-10:30 Coffee Break<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** 15:00-15:30 Coffee Break<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
* '''Dinner'''<br />
** 18:30 (at earliest) - 21:30 (at latest)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=235362008 June Workshop Germany2008-04-02T13:55:05Z<p>Heibel: /* Day 1 */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
** 08:00-08:30 Breakfast<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
** 10.00 - 10:30 Coffee Break<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
* '''Afternoon'''<br />
** 12:30-13:30 Lunch<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** 15.00 - 15:30 Coffee Break<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
* '''Evening'''<br />
** 18:30 (at earliest) - 21:00 Dinner (at latest)<br />
<br />
Coffee breaks could be either reduced to 15 minutes or split up into two breaks of 15 minutes. We just need to tell the organization at the ''IHK Akademie''.<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=235342008 June Workshop Germany2008-04-02T12:38:10Z<p>Heibel: /* Venue and Logistics */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=== Travelling Information ===<br />
<br />
Regarding the ticket you need for traveling you have two options depending on the size of the traveling group. You can either go for a partner day ticket (18 €, all zones/''Gesamtnetz'') or a single day ticket (10 €, all zones/''Gesamtnetz'').<br />
<br />
''Coming from the Munich Airport''<br />
<br />
When going to the subway station at the airport you can choose between any of the two subways, either '''S1''' (west route) or '''S8''' (east route) though the '''S8''' is probably beneficial in terms of journey time (approx. 35 minutes).<br />
<br />
With both trains you should travel to the station '''Ostbahnhof'''.<br />
<br />
At '''Ostbahnhof''' you need to change to the '''S6''' (direction '''Giesing''') and leave the train at the terminal stop '''Kreuzstraße'''.<br />
<br />
''Coming from the Central Station''<br />
<br />
At central station you can directly enter the '''S6''' (direction '''Karlsplatz/Stachus''' or '''Marienplatz''') and leave the train at the terminal stop '''Kreuzstraße'''. The traveling time is around 50 minutes.<br />
<br />
''The last meters''<br />
<br />
At '''Kreuzstraße''' you need to change into a regional express (e.g. RB30239, RB30245, RB30247, direction '''Bad Aibling''') which you will leave at the fist stop in '''Westerham'''. This final train trip requires an extra ticket which costs around 2€.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
<br />
* '''Afternoon'''<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=235332008 June Workshop Germany2008-04-02T12:00:20Z<p>Heibel: /* T-con */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
* This workshop is a hands-on workshop!<br />
* '''A working knowledge of C++ is a prerequisite''' for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
==Day 1==<br />
* '''Morning'''<br />
* Welcome (Navab, Kikinis)<br />
* Engineering methodology: (Jomier, Barre)<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK] (Jomier)<br />
** [http://public.kitware.com/VTK/index.php VTK] (Barre)<br />
** [http://www.xnat.org XNAT] (Pieper)<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]] (Jomier)<br />
<br />
* '''Afternoon'''<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]] (Pieper, Pujol, Pace?)<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]] (Pujol)<br />
** [[Slicer3:EM|The EM segmenter in Slicer]] (Pujol)<br />
<br />
==Day 2==<br />
* '''Morning'''<br />
* Slicer 3 IGT capabilities (Hata, Pace, Pieper)<br />
** Workflow (Pace)<br />
** I/O to trackers, devices, and scanners: Open IGT Link (Hata)<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control (Pace)<br />
** CUDA based volume rendering (Hata)<br />
** Application specific modules (Neuro, MRIg Prostate, Cardiac 3D US)<br />
<br />
* '''Afternoon'''<br />
* Plugs-in for Slicer 3 (Pujol)<br />
** Introduction: Plug-ins as a way to interface external programs (Pujol)<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]] (Pujol)<br />
* Closing remarks (Navab, Kikinis)<br />
<br />
= Prerequisites: Hardware and Software=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CMake]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Faculty=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Sebastien Barre<br />
# Julien Jomier<br />
<br />
=Local Host=<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: +1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=230642008 June Workshop Germany2008-03-20T12:41:33Z<p>Heibel: /* Schedule */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
==Prerequisites==<br />
*This workshop is a hands-on workshop!<br />
*A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.<br />
* You will be expected bring a computer with you with a minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory. The NA-MIC kit is running on Linux, Windows XP and Mac OSX.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: (arrival on the 15th) 16 and 17<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: (001) 1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=Jun-Germany/031708tcon&diff=23063Jun-Germany/031708tcon2008-03-20T12:40:40Z<p>Heibel: New page: T-con, March 17, 2007, 2pm German Time, 9am EST #Finance #Software and Hardware requirements need to be fixed. A place for the workshop has been booked after the last discussion, i.e. fi...</p>
<hr />
<div>T-con, March 17, 2007, 2pm German Time, 9am EST<br />
<br />
#Finance<br />
#Software and Hardware requirements need to be fixed.<br />
<br />
A place for the workshop has been booked after the last discussion, i.e. finally we have a fixed date.<br />
<br />
Currently we are waiting for an offer of a Bus tour operator which we need for the transportation of our guests to the IHK Akademie.</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=230612008 June Workshop Germany2008-03-20T12:34:48Z<p>Heibel: /* Venue and Logistics */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich. Currently our plan is to arrive already on Sunday the 15th such that the workshop can start on time on Monday morning.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.''' <br />
The NA-MIC kit is running on Linux, Windows XP and Mac OSX. A minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory are recommended.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: (001) 1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=230602008 June Workshop Germany2008-03-20T12:33:14Z<p>Heibel: /* T-con */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.''' <br />
The NA-MIC kit is running on Linux, Windows XP and Mac OSX. A minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory are recommended.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: (001) 1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=230592008 June Workshop Germany2008-03-20T12:31:13Z<p>Heibel: /* Venue and Logistics */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich.<br />
<br />
All participants will receive a letter of invitation from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.''' <br />
The NA-MIC kit is running on Linux, Windows XP and Mac OSX. A minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory are recommended.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: 1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=230582008 June Workshop Germany2008-03-20T12:30:28Z<p>Heibel: /* Venue and Logistics */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The workshop will take place at the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html IHK Akademie Westerham] on June the 16th and 17th, 2008 which is [http://maps.google.de/maps?f=q&hl=de&geocode=&q=ihk+akademie+westerham&sll=47.911308,11.826535&sspn=0.006357,0.013475&ie=UTF8&ei=LVXiR7XCKJGC3AKO5aXsDQ&sig2=6FMUFysSnMQylBd70Em9dw&cd=1&cid=47908296,11830927,18245121051090319374&li=lmd&z=14&t=m located] south-east of Munich.<br />
<br />
All participants will receive an invitation letter from the DFG. Besides the program the letter will contain a form that need to be filled out and sent back to the DFG in order to get reimbursed for travel and accommodation costs.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.''' <br />
The NA-MIC kit is running on Linux, Windows XP and Mac OSX. A minimum of 1 GB of RAM and a dedicated graphic accelerator with 128 MB of on board graphic memory are recommended.<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Requirement=<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonia Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
<br />
==T-con==<br />
Phone: 1-218-936-1100, <br />
PIN: 23869 #<br />
<br />
==Minutes==<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
#[[Jun-Germany/032408tcon | March 24, 2008 T-con, Nassier on-site]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=228172008 June Workshop Germany2008-03-11T10:41:52Z<p>Heibel: /* Schedule */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The location we have in mind is the xxx.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.'''<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* May 5 - DFG deadline for list of participants<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonja Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=228162008 June Workshop Germany2008-03-11T10:37:40Z<p>Heibel: /* Attendees */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The location we have in mind is the xxx.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.'''<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonja Pujol<br />
# Danielle Pace<br />
# Nassir Navab<br />
<br />
=Planning meeting=<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=228152008 June Workshop Germany2008-03-11T10:36:15Z<p>Heibel: </p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
The location we have in mind is the xxx.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data.<br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.'''<br />
<br />
=Application=<br />
Due to the fact that the workshop is mainly supported by the [http://www.dfg.de/ DFG] only applications of German citizens can be taken into account. Multiple applications from single institutes are possible but the primary intention is to achieve a wide spread distribution over many institutes. Finally each person attending will have to pay xxx for participating.<br />
<br />
The applications should include:<br />
* Cover letter<br />
** Field of reaserch/work<br />
** Previous experiences with the NA-MIC kit<br />
** Expectations of the participant<br />
* Currivulum vitae<br />
<br />
=Schedule=<br />
* March - Web site, Call for application <br />
* April - announcement in Nassir's talk<br />
* April 20 - deadline for application, selection Workshop<br />
* Workshop: June 12 and 13 or 16 and 17<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Hard- and Software prerequisites=<br />
* [http://www.slicer.org/ Slicer 3]<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database - TBD<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonja Pujol<br />
# Nassir Navab<br />
# <br />
<br />
=Planning meeting=<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=228142008 June Workshop Germany2008-03-11T10:08:50Z<p>Heibel: /* Venue and Logistics */</p>
<hr />
<div>__NOTOC__<br />
*Still tentative, approval pending<br />
<br />
*When: June 16/17<br />
*Where: Germany, specific location TBD<br />
<br />
== Venue and Logistics==<br />
Each person attending will have to pay xxx for participating.<br />
<br />
The location we have in mind is the xxx.<br />
<br />
Software requisites:<br />
* Slicer 3<br />
* [http://www.cmake.org/HTML/index.html CAMKE]<br />
* Working [http://www.itk.org/HTML/Download.htm ITK] environment<br />
* Working [http://www.vtk.org/get-software.php VTK] environment<br />
* Common test database (to be established)<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data. <br />
<br />
'''A working knowledge of C++ is a prerequisite for benefiting from the full curriculum.'''<br />
<br />
=Schedule=<br />
*March - Web site, Call for application <br />
*April - announcement in Nassir's talk<br />
*April 20 - deadline for application, selection Workshop<br />
*Workshop: June 12 and 13<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* How to use ITK, VTK, XNAT and Batchmake<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]] as an example of robot control<br />
** Registration in the Slicer environment<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
# Sonja Pujol<br />
<br />
=Planning meeting=<br />
#[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]<br />
#[[Jun-Germany/030508tcon | March 5, 2008 T-con]]<br />
#[[Jun-Germany/031708tcon | March 17, 2008 T-con]]<br />
<br />
=Sponsors=<br />
<gallery><br />
Image:NAMIC 380x463.jpg|[http://www.na-mic.org National Alliance for Medical Image Computing]<br />
Image:Nac.png|[http://nac.spl.harvard.edu/nac Neuroimage Analysis Center]<br />
Image:NCIGTlogo.gif|[http://www.ncigt.org National Center for Image Guided therapy]<br />
Image:LogoBIRN.jpg|[http://www.nbirn.net/ BIRN]<br />
</gallery></div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=224602008 June Workshop Germany2008-02-28T14:35:46Z<p>Heibel: /* Introduction */</p>
<hr />
<div>*Still tentative, approval pending<br />
<br />
*When: June 12/13<br />
*Where: Germany, specific location TBD<br />
<br />
=== Note: ===<br />
Can the organizers please evaluate if June the 16th and 17th would also be possible. At the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html location] we have in mind they have space for us only on these two days and we have an option for the seminar room and hotel rooms for 30 people until March the 6th, i.e. we have to make the decision at latest during our next phone conference. Our guests would have the weekend in advance (14th and 15th) to recover from traveling and for leisure activities.<br />
<br />
If you can tell right away that this date is not possible please contact [mailto:heibel@cs.tum.edu me] and I will look into alternatives.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data. ''A working knowledge of C++ is a prerequisite for benefitting from the full curriculum.<br />
''<br />
<br />
=Schedule=<br />
*March - Web site, Call for application <br />
*April - announcement in Nassir's talk<br />
*April 20 - deadline for application, selection Workshop<br />
*Workshop: June 12 and 13<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* ITK, VTK, batchmake introduction<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]]<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
** Registration within Slicer using a plug-in based on ITK<br />
<br />
* [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
=Planning meeting=<br />
[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=224592008 June Workshop Germany2008-02-28T14:34:48Z<p>Heibel: /* Program */</p>
<hr />
<div>*Still tentative, approval pending<br />
<br />
*When: June 12/13<br />
*Where: Germany, specific location TBD<br />
<br />
=== Note: ===<br />
Can the organizers please evaluate if June the 16th and 17th would also be possible. At the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html location] we have in mind they have space for us only on these two days and we have an option for the seminar room and hotel rooms for 30 people until March the 6th, i.e. we have to make the decision at latest during our next phone conference. Our guests would have the weekend in advance (14th and 15th) to recover from traveling and for leisure activities.<br />
<br />
If you can tell right away that this date is not possible please contact [mailto:heibel@cs.tum.edu me] and I will look into alternatives.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data. A working knowledge of C++ is a prerequisite for benefitting from the full curriculum.<br />
<br />
=Schedule=<br />
*March - Web site, Call for application <br />
*April - announcement in Nassir's talk<br />
*April 20 - deadline for application, selection Workshop<br />
*Workshop: June 12 and 13<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
<br />
* ITK, VTK, batchmake introduction<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.xnat.org XNAT]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 introduction & capabilities]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
<br />
* Slicer 3 IGT capabilities<br />
** Workflow engine<br />
** Real-time behavior <br />
** I/O to trackers, devices, and scanners<br />
*** Synchronization<br />
*** Output to alternative display devices, e.g. HMDs<br />
** Slicer demon<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]]<br />
<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
** Registration within Slicer using a plug-in based on ITK<br />
<br />
* [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
=Planning meeting=<br />
[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]</div>Heibelhttps://www.na-mic.org/w/index.php?title=2008_June_Workshop_Germany&diff=224572008 June Workshop Germany2008-02-28T09:12:13Z<p>Heibel: </p>
<hr />
<div>*Still tentative, approval pending<br />
<br />
*When: June 12/13<br />
*Where: Germany, specific location TBD<br />
<br />
=== Note: ===<br />
Can the organizers please evaluate if June the 16th and 17th would also be possible. At the [http://www.ihk-muenchen.de/trz/trz/inhalte/Westerham/index.html location] we have in mind they have space for us only on these two days and we have an option for the seminar room and hotel rooms for 30 people until March the 6th, i.e. we have to make the decision at latest during our next phone conference. Our guests would have the weekend in advance (14th and 15th) to recover from traveling and for leisure activities.<br />
<br />
If you can tell right away that this date is not possible please contact [mailto:heibel@cs.tum.edu me] and I will look into alternatives.<br />
<br />
=Introduction=<br />
This curriculum is intended as an introduction for scientists with engineering background who are considering using the NA-MIC kit as their software platform for research. The NA-MIC kit consists of free open source software without restrictions on use and without a give-back requirement. The NA-MIC kit is suited for academic or commercial activities.<br />
<br />
The curriculum provides an overview over the technologies, toolkits and applications which are available in the NA-MIC kit. It is a hands-on curriculum and will require participants to attend with a suitable laptop, preloaded with software and sample data. A working knowledge of C++ is a prerequisite for benefitting from the full curriculum.<br />
<br />
=Schedule=<br />
*March - Web site, Call for application <br />
*April - announcement in Nassir's talk<br />
*April 20 - deadline for application, selection Workshop<br />
*Workshop: June 12 and 13<br />
(Hata Jun 13 only)<br />
<br />
=Program=<br />
* [[media:2008_NA-MIC_AHM_Slicer3.ppt|Slicer 3 capabilities]]<br />
** [[Media:Slicer3Training LoadingAndVisualization.ppt|Loading, Visualization]]<br />
** [[Slicer3:EM|The EM segmenter in Slicer]]<br />
* Engineering methodology:<br />
** Extreme programming<br />
** What is a software engineering methodology, do I need one?<br />
** The components of the NA-MIC kit software engineering tools: CMAKE, CTEST, CPACK, Dashboards<br />
* ITK, VTK, batchmake introduction<br />
** [http://public.kitware.com/VTK/index.php VTK]<br />
** [http://www.itk.org/ItkSoftwareGuide.pdf ITK]<br />
** [[Media:NA-MIC-AHM08-BatchMake.ppt|Batchmake]]<br />
** [http://www.xnat.org XNAT]<br />
* [[media:Slicer_3-beta-2007-01-10.ppt|Slicer 3 architecture]]<br />
* Plug-ins for Slicer 3<br />
** Introduction: Plug-ins as a way to interface external programs<br />
** [[2008_Winter_Project_Week_Plug-ins_for_Slicer3|How-to make a hello world plug-in]]<br />
** Segmentation in Slicer using a plug-in based on ITK<br />
* Slicer 3 IGT capabilities<br />
** workflow engine<br />
** real-time behavior<br />
** Slicer demon<br />
** i/o to trackers, devices, and scanners<br />
** [[LEGO_IGT_and_Medical_Robotics_Tutorial|Lego robot tutorial]]<br />
<br />
=Attendees=<br />
# Ron Kikinis<br />
# Steve Pieper<br />
# Noby Hata<br />
=Planning meeting=<br />
[[Jun-Germany/022608tcon | Feb 26, 2008 T-con]]</div>Heibel