Diff for "ScriptingNotes" - MRC CBU Imaging Wiki
location: Diff for "ScriptingNotes"
Differences between revisions 16 and 21 (spanning 5 versions)
⇤ ← Revision 16 as of 2006-10-02 11:11:40 →
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Editor: IanNimmoSmith
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← Revision 21 as of 2013-03-07 21:23:05 → ⇥
Size: 1316
Editor: localhost
Comment: converted to 1.6 markup
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  ["MYV"]

 '''BitOfScript'''		   [[MYV]]
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  * Why Batch?  * Why Batch?
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 * Spm5Tasks   '''BitOfScript'''

  * Spm5Tasks
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   * ''Query: how to get jobs saves a .m or .xml files as well as a .mat file? - These options could be useful as these are text files and easier to edit.
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  * ''To be clarified: there may be some undocumented functionality for linking up tasks in sequence so that output of one task become the input to the next.'''   * ''To be clarified: there is some barely undocumented functionality for linking up tasks in sequence so that output of one task become the input to the next. E.g. if you add a normalisation after creating a realignment you will see the option of choosing r* files for normalizing despite the fact that they do not yet exist!'''
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 ["Jobs3"] 
[[Jobs3]]
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PetModelAutomation5    * PetModelAutomation5

Notes on Scripting, Batching and Tasking for SPM5

  • Why Script?

    • A large part of SPM code is complex housekeeping related to files and directories
    • Tailoring requires attention to these housekeeping matters

      • Have I got the right files?

    • Need to create novel suite of analyses out of a number of core modules
    • Intercommunication via the SPM.mat structure

      MYV

      AllGorySpmMat

  • Why Batch?
    • Need to perform same or similar analyses on several datasets

      BitOfScript

    • Spm5Tasks

    • How to access them
    • What they do

      • Query: how to get jobs saves a .m or .xml files as well as a .mat file? - These options could be useful as these are text files and easier to edit.

    • Job/task manager can be extended

    • To be clarified: there is some barely undocumented functionality for linking up tasks in sequence so that output of one task become the input to the next. E.g. if you add a normalisation after creating a realignment you will see the option of choosing r* files for normalizing despite the fact that they do not yet exist!

    Jobs3

  • Other approaches

CbuImaging: ScriptingNotes (last edited 2013-03-07 21:23:05 by localhost)