[Freesurfer] FSFAST -> NIFTI

On Tuesday, I will change the default FSFAST output format to NIFTI. This will be done by setting an environment variable in the DEV environment, namely

setenv FSF_OUTPUT_FORMAT nii

If you want to continue to use bshort/bfloat, then set the following in your own environment:

setenv FSF_OUTPUT_FORMAT bhdr

Note that this only affects the output format. The tools should read any format as input (ie, you do not need to change exising data to NIFTI).

You can also unpack directly to NIFTI with unpacksdcmdir (or mri_convert).

You can also use any of these formats:

setenv FSF_OUTPUT_FORMAT nii.gz setenv FSF_OUTPUT_FORMAT mgh setenv FSF_OUTPUT_FORMAT mgz

Doubtless there will be some glitches along the way, so be patient:).

doug