For several of my subjects when running through the eddy program .....
@ linenum = 1
foreach subj (`ls -d /Volumes/DANIEL/AES130 | sed 's/\// /g' | awk '{print $3}'`)
foreach cond (Rest)
echo "subj = " ${subj} ", cond = " ${cond}
cd /Volumes/DANIEL/${subj}/${subj}.${cond}
#eddy correct function by fsl (on other computers probably needs to be eddy_openmp)
#input origional dti dataset, binary mask that has been automatically and manually edited, acqp (text file/get from mri tech), index (text file), bvecs, and bvals.
#replace outliers (--repol), output as eddy_corrected_data
eddy --imain=DTI_analysis.nii.gz --mask=COPY_b0_brain_0.4_mask_eroded.nii.gz --acqp=acqp.txt --index=index.txt --bvecs=bvec.txt --bvals=bvalue.txt --repol --field=/Volumes/DANIEL/${subj}/${subj}.${cond}/field_map/FieldMap2dti --out=eddy_corrected_data
end
end
I get the error ....
[hlhp-105:DANIEL/scripts/5] administrator% ./script_eddy.sh
subj = AES130 , cond = Rest
libc++abi.dylib: terminating with uncaught exception of type NEWMAT::SingularException
Abort
Any idea what this error means?
Thanks,
Daniel
########################################################################
To unsubscribe from the FSL list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1
|