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Thank you for your quick response, Saad,
I downloaded tractography data and tested the parallelization by simply running commandline:
bedpostx subj1
It created 76 jobs which it submitted, and they all ran within an hour or so and seem to have completed normally, with no errors in the logs.
I then tried to run my dataset:
dimensions: 320 x 320 x 260 x 122
voxel sizes: 0.250000, 0.250000, 0.250000
There is an error that occurs in all of the jobs (it creates 260 jobs).
The error is:
terminate called after throwing an instance of 'std::logic_error' what(): Mat::operator(): index out of bounds /N/soft/rhel7/fsl/6.0.0/bin/bedpostx_single_slice.sh:
line 80: 16485 Aborted
${FSLDIR}/bin/xfibres --data=$subjdir/data_slice_$slicezp --mask=$subjdir/nodif_brain_mask_slice_$slicezp -b $subjdir/bvals -r
$subjdir/bvecs –forcedir --logdir=$subjdir.bedpostX/diff_slices/data_slice_$slicezp $opts >
$subjdir.bedpostX/logs/log$slicezp
Can you help me understand the error?
And do you have any hint on how to solve it?
Thank you in advance.
Best,
Ilaria
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]]
On Behalf Of Saad Jbabdi
Sent: Tuesday, November 13, 2018 12:53 PM
To: [log in to unmask]
Subject: Re: [FSL] download low res diffusion dataset to test parallelized bedpostx
Hi
You can try the FSL course example data, which you can download from http://fsl.fmrib.ox.ac.uk/fslcourse/
Cheers
saad