Dear FSL experts,
I have 2 questions regarding processing DTI data:
1. When I run BedpostX, I get an error at the end that says:
/usr/local/fsl/bin/bedpostx: line 220: 11092 Terminated
${subjdir}.bedpostX/monitor
However, I seem to be able to trace fibers just fine and they look as
expected. Can someone tell me what this error is about and whether it
affects the results?
2. I am trying to edit the tbss_2_reg script to pass on fnirt options
into fsl_reg so that I can include masks in the registration process,
but it didn't work. I basically edited the do_reg function to:
do_reg(){
f=$1
for g in `$FSLDIR/bin/imglob *_FA.*` ; do
o=${g}_to_$f
mysub=`basename ${g} _FA_FA.nii.gz`
if [ ! -f ${o}_warp.msf ] ; then
echo $o
touch ${o}_warp.msf
echo "$FSLDIR/bin/fsl_reg $g $f ${g}_to_$f -e -fnirt
--inmask=${subjdir}/FA_tbss/${mysub}_lesion_mask -FA" >> .commands
fi
done
}
Did I do that incorrectly or are there other scripts I need to edit?
Any advice is appreciated.
Thank you,
Xin
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