Commit 822f028b authored by Bo-Chun Chen's avatar Bo-Chun Chen
Browse files

Add fsqc.sh

parent d3526219
#!/bin/bash
echo "<html>" > index.html
echo "<table>" >> index.html
for sub in $(ls ${SUBJECTS_DIR});
do
echo "<tr>" >> index.html
echo "<td><a href=\"file:"$sub".lh.lat.hr.tif\"><img src=\""$sub".lh.lat.lr.tif\"></a></td>" >> index.html
echo "<td><a href=\"file:"$sub".lh.med.hr.tif\"><img src=\""$sub".lh.med.lr.tif\"></a></td>" >> index.html
echo "<td><a href=\"file:"$sub".rh.lat.hr.tif\"><img src=\""$sub".rh.lat.lr.tif\"></a></td>" >> index.html
echo "<td><a href=\"file:"$sub".rh.med.hr.tif\"><img src=\""$sub".rh.med.lr.tif\"></a></td>" >> index.html
echo "</tr>" >> index.html
echo "<tr>" >> index.html
echo "<td colspan=4><center>"$sub"</center><br></td>" >> index.html
echo "</tr>" >> index.html
echo "labl_import_annotation \"aparc.annot\"" > tmp.tcl
echo "scale_brain 1.35" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".lh.lat.hr.tif" >>tmp.tcl
echo "rotate_brain_y 180.0" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".lh.med.hr.tif" >>tmp.tcl
echo "resize_window 300" >>tmp.tcl
echo "rotate_brain_y -180.0" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".lh.lat.lr.tif" >>tmp.tcl
echo "rotate_brain_y 180.0" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".lh.med.lr.tif" >>tmp.tcl
echo "exit 0" >>tmp.tcl
tksurfer $sub lh pial -tcl tmp.tcl
echo "labl_import_annotation \"aparc.annot\"" > tmp.tcl
echo "scale_brain 1.35" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".rh.lat.hr.tif" >>tmp.tcl
echo "rotate_brain_y 180.0" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".rh.med.hr.tif" >>tmp.tcl
echo "rotate_brain_y -180.0" >>tmp.tcl
echo "resize_window 300" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".rh.lat.lr.tif" >>tmp.tcl
echo "rotate_brain_y 180.0" >>tmp.tcl
echo "redraw" >>tmp.tcl
echo "save_tiff "$sub".rh.med.lr.tif" >>tmp.tcl
echo "exit 0" >>tmp.tcl
tksurfer $sub rh pial -tcl tmp.tcl
rm tmp.tcl
done;
echo "</table>" >> index.html
echo "</html>" >> index.html
\ No newline at end of file
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