Dear Theodor,
can you please let me know if you are using the latest version of FSL, what system you are on and what version of eddy you are using (single-threaded, multi-threaded or GPU)?
Best regards Jesper
On 29 Oct 2015, at 10:46, Theodor Rüber <[log in to unmask]> wrote:
> Dear FSL community,
>
> We are currently processing the freely available dataset of the Human Connectome LS Project. Here we ran into problems running the eddy current correction. For some (not all) participants, the “eddy” command that we use throws the following error:
> Segmentation violation, Address not mapped, Offending address = 0x402b92720
> /usr/lib/fsl/5.0/libnewimage.so SPLINTERPOLATOR::Splinterpolator<float>::value_at(double const*) const [0x7f02a107c55a]
> /usr/lib/fsl/5.0/libnewimage.so NEWIMAGE::volume<float>::splineinterpolate(float, float, float) const [0x7f02a107ca46]
> /usr/lib/fsl/5.0/libnewimage.so NEWIMAGE::volume<float>::interpolate(float, float, float) const [0x7f02a107cfb7]
>
> Our eddy command is the following:
> eddy --imain=${sbj}_dir81_merged_LR_RL_gdc --mask=${sbj}_b0_topup_brain_mask --acqp=acqparms.txt --index=eddy_param.txt --bvecs=${sbj}_dir81_merged_LR_RL.bvec --bvals=${sbj}_dir81_merged_LR_RL.bval --topup=${sbj}_b0_topup_results --out=${sbj}_eddy_corr_data
>
> I read in another thread about this error (https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind1503&L=FSL&D=0&P=27784) . Here, the problem apparently was that the values of the bvecs and the bvals-files did not match. This is definitely not the case for our data. One possible problem is that we cannot use the b02b0.cnf config file, since our image dimensions (x=120, y=140, z=93) do not align properly with the sub-sampling rate used in the config file (apparently they need to be multiples of 2). Do you think, this might be the problem? And if yes, why does it work for some of the participants but not for others? What shall we do?
>
> Thanks a lot in advance for your help!
> Best,
> Theodor.
>
> =================
> Theodor Rüber, MD
> Department of Epileptology
> University Hospital Bonn
> Sigmund-Freud-Str. 25
> 53127 Bonn
> GERMANY
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