Slicer3:Grid Interface
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Project: Integration of NAMIC Kit and the 'Grid'
Goals:
- Provide a tool for the NA-MIC kit to enable distributed execution of programs
- Supply interfaces to these tools via Slicer3:Execution_Model
- Identify constraints and requirements for Slicer3 for cluster-based execution
Current Status:
- Tool (GridWizard) currently under development
- CLRegistration is considered a key use case for Grid computation for the NA-MIC kit
- Exact changes to Slicer3:Execution_Model are under consideration
- Shown below is one proposal
- Another proposal is to use the <channel> element (in, out, inout)
- Lists and file globs may cause some problems in the Slicer3 display
Example of Grid Interface XML Awareness: >./gi-init -xml
<?xml version="1.0" encoding="utf-8"?> <executable> <category>execution environment</category> <title>Slicer3 Grid Interface</title> <description>Launches executables in a grid environment</description> <version>1.0</version> <documentationurl></documentationurl> <license></license> <contributor>Brendan Faherty</contributor> <parameters> <label>Grid Interface Parameters</label> <description></description> <flag> <flag>-i</flag> <description>Use to pass XML instructions through STDIN</description> <label>XML STDIN</label> </flag> <file> <flag>-f</flag> <descriptions>use to pass XML instructuions through a file</description> <label>XML File</label> </file> </executable>
The XML file that might be referenced via "gi-init -f JOB.xml" >cat CLRegistration.xml
<?xml version="1.0" encoding="utf-8"?> <executable> <executable>CLRegistration</executable> <path>/path/to/CLRegistration</path> <parameters> <integer> <flag>b</flag> <value>30</value> </integer> <integer> <flag>s</flag> <value>10000</value> </integer> <string> <flag>i</flag> <longflag>iterations</longflag> <value>200,100</value> </string> <string> <flag>l</flag> <value>0.05,0.005</value> </string> <double> <flag>t</flag> <value>100.0</value> </double> <file> {! -- will be passed as "-Fixed Image1" --} <flag>-Fixed</flag> <name>Image1</name> <protocol>srb</protocol> <path>/home/Projects/NAMIC_0003/Files/Havard/active_morph/HUV109121/images/</path> <transfer>singleton</transfer> </file> <file> {! -- will be passed as "-Moving Image2" --} <flag>-Moving</flag> <name>Image2</name> <protocol>srb</protocol> <path>/home/Projects/NAMIC_0003/Files/Havard/active_morph/HUV109121/images/</path> <transfer>directory_non_recursive</transfer> </file> <file> {! -- will be passed as "-Output Data" --} <flag>-Output</flag> <name>Data</name> <path>/home/Projects/NAMIC__0003/Files/Harvard/archive_morph/HUVA0123123/</path> <protocol>srb</protocol> <transfer>directory_recursive</transfer> </file> </parameters> </executable>
Team Members:
- Jeff Grethe- UCSD
- Neil Jones - UCSD
- Steve Pieper - BWH
- Daniel Blezek - GE