Usage: 3dBRAIN_VOYAGERtoAFNI <-input BV_VOLUME.vmr>
[-bs] [-qx] [-tlrc|-acpc|-orig] [<-prefix PREFIX>]
Converts a BrainVoyager vmr dataset to AFNI's BRIK format
The conversion is based on information from BrainVoyager's
website: www.brainvoyager.com.
Sample data and information provided by
Adam Greenberg and Nikolaus Kriegeskorte.
If you get error messages about the number of
voxels and file size, try the options below.
I hope to automate these options once I have
a better description of the BrainVoyager QX format.
Optional Parameters:
-bs: Force byte swapping.
-qx: .vmr file is from BrainVoyager QX
-tlrc: dset in tlrc space
-acpc: dset in acpc-aligned space
-orig: dset in orig space
If unspecified, the program attempts to guess the view from
the name of the input.
[-novolreg]: Ignore any Rotate, Volreg, Tagalign,
or WarpDrive transformations present in
the Surface Volume.
[-noxform]: Same as -novolreg
[-setenv "'ENVname=ENVvalue'"]: Set environment variable ENVname
to be ENVvalue. Quotes are necessary.
Example: suma -setenv "'SUMA_BackgroundColor = 1 0 1'"
See also options -update_env, -environment, etc
in the output of 'suma -help'
Common Debugging Options:
[-trace]: Turns on In/Out debug and Memory tracing.
For speeding up the tracing log, I recommend
you redirect stdout to a file when using this option.
For example, if you were running suma you would use:
suma -spec lh.spec -sv ... > TraceFile
This option replaces the old -iodbg and -memdbg.
[-TRACE]: Turns on extreme tracing.
[-nomall]: Turn off memory tracing.
[-yesmall]: Turn on memory tracing (default).
NOTE: For programs that output results to stdout
(that is to your shell/screen), the debugging info
might get mixed up with your results.
Global Options (available to all AFNI/SUMA programs)
-h: Mini help, at time, same as -help in many cases.
-help: The entire help output
-HELP: Extreme help, same as -help in majority of cases.
-h_view: Open help in text editor. AFNI will try to find a GUI editor
-hview : on your machine. You can control which it should use by
setting environment variable AFNI_GUI_EDITOR.
-h_web: Open help in web browser. AFNI will try to find a browser.
-hweb : on your machine. You can control which it should use by
setting environment variable AFNI_GUI_EDITOR.
-h_find WORD: Look for lines in this programs's -help output that match
(approximately) WORD.
-h_raw: Help string unedited
-h_spx: Help string in sphinx loveliness, but do not try to autoformat
-h_aspx: Help string in sphinx with autoformatting of options, etc.
-all_opts: Try to identify all options for the program from the
output of its -help option. Some options might be missed
and others misidentified. Use this output for hints only.
Compile Date:
Oct 17 2024
