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@@ -0,0 +1,16 @@
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+#!/bin/bash
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+
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+set -e
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+set -u
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+
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+for sub in 01 02 03 04 05 06 09 10 14 15 16 17 18 19 20; do
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+ mkdir -p sub-${sub}/atlases/bold3Tp2
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+ $FSLDIR/bin/applywarp \
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+ -i atlases/shen/fconn_atlas_150_1mm.nii.gz \
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+ -r src/aligned/src/tnt/sub-${sub}/bold3Tp2/brain.nii.gz \
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+ -o sub-${sub}/atlases/bold3Tp2/shen_fconn_atlas_150.nii.gz \
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+ --premat=src/aligned/src/tnt/templates/grpbold3Tp2/xfm/mni2tmpl_12dof.mat \
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+ -w src/aligned/src/tnt/sub-${sub}/bold3Tp2/in_grpbold3Tp2/tmpl2subj_warp.nii.gz \
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+ --interp=nn \
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+ -m src/aligned/src/tnt/sub-${sub}/bold3Tp2/brain_mask.nii.gz
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+done
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