7.1.184. 3daxialize

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Usage: 3daxialize [options] dataset Purpose: Read in a dataset and write it out as a new dataset

with the data brick oriented as axial slices. The input dataset must have a .BRIK file. One application is to create a dataset that can be used with the AFNI volume rendering plugin.

Options:

-prefix ppp = Use ‘ppp’ as the prefix for the new dataset.
[default = ‘axialize’]
-verb = Print out a progress report.

The following options determine the order/orientation in which the slices will be written to the dataset:

-sagittal = Do sagittal slice order [-orient ASL]
-coronal = Do coronal slice order [-orient RSA]
-axial = Do axial slice order [-orient RAI]
This is the default AFNI axial order, and is the one currently required by the volume rendering plugin; this is also the default orientation output by this program (hence the program’s name).
-orient code = Orientation code for output.

The code must be 3 letters, one each from the pairs {R,L} {A,P} {I,S}. The first letter gives the orientation of the x-axis, the second the orientation of the y-axis, the third the z-axis:

R = Right-to-left L = Left-to-right A = Anterior-to-posterior P = Posterior-to-anterior I = Inferior-to-superior S = Superior-to-inferior

If you give an illegal code (e.g., ‘LPR’), then the program will print a message and stop.

N.B.: ‘Neurological order’ is -orient LPI

-frugal = Write out data as it is rotated, a sub-brick at
a time. This saves a little memory and was the previous behavior. Note the frugal option is not available with NIFTI datasets

INPUT DATASET NAMES

This program accepts datasets that are modified on input according to the following schemes:

‘r1+orig[3..5]’ {sub-brick selector} ‘r1+orig<100..200>’ {sub-range selector} ‘r1+orig[3..5]<100..200>’ {both selectors} ‘3dcalc( -a r1+orig -b r2+orig -expr 0.5*(a+b) )’ {calculation}

For the gruesome details, see the output of ‘afni -help’.

++ Compile date = Dec 16 2015

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