Slicer3:Batchmake Integration

Introduction

• Goal: Run Slicer execution modules on multiple datasets and/or explore the parameter space of those modules using local computer resources or local GRID resources

Background

• BatchMake provides an open-source toolkit for launching a controlled sequence of applications on the local computer or a GRID.
• Condor is used as the open-source toolkit that provides access to GRID resource. It also provides an easy-to-install and easy-to-configure GRID implementation/network. We highly recommend it for your GRID needs.
• BatchMake and Condor work together to sequence tasks and to allocate and monitor resources and job progress.

Status

Completed

1. BatchMake Library
   • Distributed via Slicer3's getbuildtest2.tcl script
     • Slicer3 code location: Slicer3-lib/BatchMake
   • Default distribution does not include Condor
     • Can be installed by users
     • Changing two BatchMake variables will configure BatchMake to use Condor
2. EMSegmenter BatchMake module
   • Distributed via Slicer3's getbuildtest2.tcl script
     • Slicer3 GUI Access: Filters/BatchProcessing/EMSegmenter BatchMake Module
     • Slicer3 code location: Slicer3/Applications/CLI/BatchMake
   • Applies EMSegmenter algorithm to a collection of data using local computer or GRID
3. GaussianBlur BatchMake module
   • Distributed via Slicer3's getbuildtest2.tcl script
     • Slicer3 GUI Access: Filters/BatchProcessing/GaussianBlur BatchMake Module
   • Provides a simple example of how to batchmake-ify your Slicer3 modules

= To do

• Provide documentation
• Determine how to deliver BatchMake's GRID monitoring tool with Slicer3
  • Requires FLTK - will not be re-written into KWWidgets