Dear experts,
I have the last version of tTrakula. i did the first step with
trac-all -prep -c bmdaten/Auswertung/ALS-Review/Trakula/dmrirc
This worked properly to the end as shown below:
trac-preproc finished without error at Fri Aug 14 17:31:29 CEST 2015
However looking at logfile i found following errors:
flirt -in
bmdaten/Auswertung/ALS-Review/Trakula//P01-a/dlabel/anat/aparc+aseg_mask.nii.gz
-ref bmdaten/Auswertung/ALS-Review/Trakula//P01-a/dmri/lowb.nii.gz -out
bmdaten/Auswertung/ALS-Review/Trakula//P01-a/dlabel/diff/aparc+aseg_mask.bbr.nii.gz
-applyxfm -init
bmdaten/Auswertung/ALS-Review/Trakula//P01-a/dmri/xfms/anat2diff.bbr.mat
-interp nearestneighbour
terminate called after throwing an instance of 'NEWMAT::SingularException'
Abort (core dumped)
OR
Loading brain mask of output subject from
/home/bm/bmdaten/Auswertung/ALS-Review/Trakula/P01-a/dlabel/mni/lowb_brain_mask.bbr.nii.gz
niiRead(): error opening file
/home/bm/bmdaten/Auswertung/ALS-Review/Trakula/P01-a/dlabel/mni/lowb_brain_mask.bbr.nii.gz
ERROR: Could not read
/home/bm/bmdaten/Auswertung/ALS-Review/Trakula/P01-a/dlabel/mni/lowb_brain_mask.bbr.nii.gz
AND as i tried the next step i got the following error:
bm@bm-linux:~$ trac-all -bedp -c
bmdaten/Auswertung/ALS-Review/Trakula/dmrirc
INFO: SUBJECTS_DIR is bmdaten/Auswertung/ALS-Review/Trakula/
INFO: Diffusion root is bmdaten/Auswertung/ALS-Review/Trakula/
Actual FREESURFER_HOME /usr/local/freesurfer
WARN: Running FSL's bedbost locally - this might take a while
WARN: It is recommended to run this step on a cluster
bedpostx_mgh -n 2 bmdaten/Auswertung/ALS-Review/Trakula//P01-a/dmri
/usr/local/freesurfer/bin/bedpostx_mgh: 131:
/usr/local/freesurfer/bin/bedpostx_mgh: Syntax error: "(" unexpected
Could you please advise me what to do?
Best
Bahram
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