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fs_load
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#!/bin/bash
SUBJ=$1
OUTDIR=$2
SURF=smoothwm
# ## example test view - coronal front
# freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
# -f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
# --viewport '3d' --viewsize 900 900 -cam zoom 1.5 azimuth -90
##
## SUBJECT_DIR needs to be defined
##
## sagittal left
freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -cam zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_sagittal_left
## sagittal right
freeview -f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -cam azimuth 180 zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_sagittal_right
## medial left
freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -cam azimuth 180 zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_medial_left
## medial right
freeview -f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -cam zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_medial_right
## both hemispheres - coronal still off
## coronal front
freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
-f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -ras 0 0 0 -cam azimuth -90 zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_coronal_front
## coronal back
freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
-f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -ras 0 0 0 -cam azimuth 90 zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_coronal_back
## axial top
freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
-f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -ras 0 0 0 -cam elevation 90 zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_axial_top
## axial bottom
freeview -f $SUBJECTS_DIR/$1/surf/lh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
-f $SUBJECTS_DIR/$1/surf/rh.${SURF}:edgethickness=0:annot=aparc.DKTatlas40.annot \
--viewport '3d' --viewsize 900 900 -ras 0 0 0 -cam elevation -90 zoom 1.5 -ss $OUTDIR/${SUBJ}_${SURF}_axial_bottom