Difference between revisions of "IGT:ToolKit/Navigation-with-Aurora"

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The general IGT navigation system consists of the following components:
 
The general IGT navigation system consists of the following components:
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* Slicer3 - the base platform
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* Slicer3 - the base platform plus IGT modules such as OpenIGTLink and NeuroNav
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* OpenIGTLink module - a loadable software module plugged into Slicer3
 
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* NeuoNav module - a Slicer3 loadable module
 
 
* IGSTK - an interfacing tool for common commercial tracking devices
 
* IGSTK - an interfacing tool for common commercial tracking devices
 
* A tracking device - such as the NDI Aurora magnetic tracking system
 
* A tracking device - such as the NDI Aurora magnetic tracking system
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==Tutorial Materials==
 
==Tutorial Materials==
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* [[Media:IGTAdvancedNavigation.pdf|Tutorial slides]] for the Advanced Navigation Tutorial
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* Tutorial slides for the Advanced Navigation Tutorial: [[Media:IGTAdvancedNavigation.pdf|pdf (recommended)]] or [[Media:IGTAdvancedNavigation.ppt|ppt]]
 
* Atlas: download the .zip file from either the [http://www.na-mic.org/pages/Special:PubDB_View?dspaceid=1265 SPL-PNL Brain Atlas] or the [http://www.spl.harvard.edu/pages/Special:PubDB_View?dspaceid=1266 SPL Abdominal Atlas]
 
* Atlas: download the .zip file from either the [http://www.na-mic.org/pages/Special:PubDB_View?dspaceid=1265 SPL-PNL Brain Atlas] or the [http://www.spl.harvard.edu/pages/Special:PubDB_View?dspaceid=1266 SPL Abdominal Atlas]
  
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Go to the [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Install-Slicer3 Slicer3 Install] site.
 
Go to the [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Install-Slicer3 Slicer3 Install] site.
  
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=== '''Step 2: Install the OpenIGTLink module and NeuroNav module''' ===
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=== '''Step 2: Install IGSTK Package''' ===
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OpenIGTLink is a communication protocol used to interface Slicer3 with external devices, such as trackers, imaging devices and robots. OpenIGTLink is currently distributed as a loadable module for Slicer3.
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IGSTK package is used to acquire tracking data from the NDI Aurora tracking system. To build it from the source code, [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Build-IGSTK find the instructions here].
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NeuroNav is a module designed and implemented for neuro navigation in Slicer3.
 
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* '''Step 2a:'''  You have the choice of either downloading a precompiled version (binary) '''OR''' building it yourself from the source code:
 
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** Precompiled OpenIGTLink module (for use with Slicer 3.2):  Download and unzip.
 
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*** [[Media:OpenIGTLink_3.2_Win_x86_32.zip| For Windows (32-bit)]].
 
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*** [[Media:OpenIGTLink_Darwin_3.2_x86.tgz| For Mac OS X (x86)]].
 
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*** [[Media:OpenIGTLink_3.2_Linux_x86_32.tgz| For Linux (x86, 32-bit)]].
 
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*** [[Media:OpenIGTLink_3.2_Linux_x86_64.tgz| For Linux (x86, 64-bit)]].
 
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** Building the OpenIGTLink module from source code:  [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Build-OpenIGTLink Find the instructions here]
 
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** Building the NeuroNav module from source code:  [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Build-NeuroNav Find the instructions here]
 
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* ''' Step 2b:''' Copy the binary into '''your-slicer3-build(install)-directory'''/lib/Slicer3/Modules.  You should see the OpenIGTLink module and NeuroNav module in the Slicer3 module list once Slicer3 is started.
 
  
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=== '''Step 3: Install IGSTK and IGSTKSandbox''' ===
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=== '''Step 3: Set up Communication between IGSTK and Slicer''' ===
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IGSTK is used to acquire tracking data from the NDI Aurora tracking system.
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Here are the [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Connect-IGSTK-Slicer steps] to connect IGSTK and Slicer3.
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* You have the choice of either downloading a precompiled version (binary) '''OR''' building it yourself from the source code:
 
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** Precompiled IGSTK:  Download and unzip - you should find the directory '''IGSTKSandbox-build'''
 
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*** '''For Windows (32-bit).'''
 
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*** '''For Mac OS X (x86).'''
 
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*** [[Media:IGSTKSandbox.tgz| For Linux (x86, 32-bit)]].
 
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*** '''For Linux (x86, 64-bit).'''
 
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** Building IGSTK and IGSTKSandbox from source code: [http://wiki.na-mic.org/Wiki/index.php/IGT:ToolKit/Build-IGSTK Find the instructions here]
 
  
 
==People==
 
==People==

Latest revision as of 18:08, 25 May 2009

Home < IGT:ToolKit < Navigation-with-Aurora
AdvancedNavigationTutorialSummary.png

Back to IGT:ToolKit

Advanced Slicer3 Navigation Tutorial

Overview:

This tutorial uses an NDI Aurora tracking system to explain how navigation works in Slicer3. It also contains a more advanced description of the OpenIGTLink protocol.

The general IGT navigation system consists of the following components:

  • Slicer3 - the base platform plus IGT modules such as OpenIGTLink and NeuroNav
  • IGSTK - an interfacing tool for common commercial tracking devices
  • A tracking device - such as the NDI Aurora magnetic tracking system

Before you start the advanced tutorial, you should go through the Basic Navigation Tutorial.

Tutorial Materials

Required Hardware

  • NDI Aurora tracking device with tracked tool
  • If your computer does not have a serial port, you will need a Serial-to-USB converter

Software Installation Instructions

Step 1: Install Slicer3

Go to the Slicer3 Install site.

Step 2: Install IGSTK Package

IGSTK package is used to acquire tracking data from the NDI Aurora tracking system. To build it from the source code, find the instructions here.

Step 3: Set up Communication between IGSTK and Slicer

Here are the steps to connect IGSTK and Slicer3.

People

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