Hi Robby - Since you're running it locally and not on a cluster, you can
just run bedpostx directly:
bedpostx /media/mri/DATAPART11/ROBBY/FREESURFER/T1/INP_080_LISA_V_1/dmri
a.y
On Tue, 9 Sep 2014, Robby De Pauw wrote:
>
> Dear Anastasia, Barbara & FS-community,
>
> The preprocessing step of Tracula was succesfully completed. However
> when I try to do the next step: fitting the Ball & Stick model I get
> another error:
>
> mri@ge24c165:/media/mri/DATAPART11/ROBBY/FREESURFER$ trac-all -bedp -c
> dmrirc.info
> INFO: SUBJECTS_DIR is /media/mri/DATAPART11/ROBBY/FREESURFER/T1
> INFO: Diffusion root is /media/mri/DATAPART11/ROBBY/FREESURFER/T1
> Actual FREESURFER_HOME /usr/local/freesurfer
> INFO: current FREESURFER_HOME does not match that of previous processing.
> Current: /usr/local/freesurfer
> Previous:
> /apps/gent/SL6/sandybridge/software/FreeSurfer/5.3.0-centos4_x86_64
> 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
> /media/mri/DATAPART11/ROBBY/FREESURFER/T1/INP_080_LISA_V_1/dmri
> /usr/local/freesurfer/bin/bedpostx_mgh: 131:
> /usr/local/freesurfer/bin/bedpostx_mgh: Syntax error: "(" unexpected
>
> I have already searched through your mailing list and found a topic
> where the same problem is discussed:[Freesurfer] FreeSurfer 5.2
> TRACULA and FSL 5. I've already checked for the things that were
> suggested here, but I didn't find a solution. Hoping for some help?
>
> Thanks,
>
> Regards,
>
> Robby
>
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>
>
>
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