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Commit 835c7815 authored by Matthew Webster's avatar Matthew Webster
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remove unnecessary ext

parent 12eef880
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fsl_anat
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......@@ -569,8 +569,8 @@ if [ $do_subcortseg = yes ] ; then
run mkdir first_results
echo "$FSLDIR/bin/run_first_all $firstreg -i ${T1}_biascorr -o first_results/${T1}_first -a ${T1}_biascorr_to_std_sub.mat" >> $LOGFILE
FIRSTID=`$FSLDIR/bin/run_first_all $firstreg -i ${T1}_biascorr -o first_results/${T1}_first -a ${T1}_biascorr_to_std_sub.mat`
echo "$FSLDIR/bin/fsl_sub -T 1 -j $FIRSTID imcp first_results/${T1}_first_all_fast_firstseg.${ext} ${T1}_subcort_seg.${ext}" >> $LOGFILE
$FSLDIR/bin/fsl_sub -T 1 -j $FIRSTID imcp first_results/${T1}_first_all_fast_firstseg.${ext} ${T1}_subcort_seg.${ext}
echo "$FSLDIR/bin/fsl_sub -T 1 -j $FIRSTID imcp first_results/${T1}_first_all_fast_firstseg ${T1}_subcort_seg" >> $LOGFILE
$FSLDIR/bin/fsl_sub -T 1 -j $FIRSTID imcp first_results/${T1}_first_all_fast_firstseg ${T1}_subcort_seg
fi
......
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