- #!/bin/bash
- set -e
- set -u
- for sub in 01 02 03 04 05 06 09 10 14 15 16 17 18 19 20; do
- mkdir -p sub-${sub}/atlases/bold3Tp2
- $FSLDIR/bin/applywarp \
- -i atlases/shen/fconn_atlas_150_1mm.nii.gz \
- -r src/aligned/src/tnt/sub-${sub}/bold3Tp2/brain.nii.gz \
- -o sub-${sub}/atlases/bold3Tp2/shen_fconn_atlas_150.nii.gz \
- --premat=src/aligned/src/tnt/templates/grpbold3Tp2/xfm/mni2tmpl_12dof.mat \
- -w src/aligned/src/tnt/sub-${sub}/bold3Tp2/in_grpbold3Tp2/tmpl2subj_warp.nii.gz \
- --interp=nn \
- -m src/aligned/src/tnt/sub-${sub}/bold3Tp2/brain_mask.nii.gz
- done
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