uber_align_test.py

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uber_align_test.py      - generate script to test anat/EPI alignment

        usage:  uber_align_test.py

---

This help describes only the command line options to this program, which
enables one to:

        - initialize user variables (for GUI or command line)
        - initialize control variables (for GUI or command line)
        - pass PyQt4 options directly to the GUI
        - run without the GUI

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Examples:

   GUI examples:

      uber_align_test.py
      uber_align_test.py -qt_opts -style=motif

   Informational examples:

      uber_align_test.py -help
      uber_align_test.py -help_gui
      uber_align_test.py -hist
      uber_align_test.py -show_valid_opts
      uber_align_test.py -ver

   Non-GUI examples (all have -no_gui):

      uber_align_test.py -no_gui -print_script            \
         -uvar anat FT/FT_anat+orig                       \
         -uvar epi  FT/FT_epi_r1+orig

      uber_align_test.py -no_gui -save_script align.test  \
         -uvar anat FT/FT_anat+orig                       \
         -uvar epi  FT/FT_epi_r1+orig                     \
         -uvar epi_base 2                                 \
         -uvar epi_strip_meth 3dAutomask                  \
         -uvar align_centers yes                          \
         -uvar giant_move yes                             \
         -uvar cost ls                                    \
         -uvar multi_list lpc lpc+ lpc+ZZ lpa

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- R Reynolds  Apr, 2011
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