Hi Paul,

you can try to re-run from scratch (ensure there is enough space on the disk) and if you can replicate the problem start dropping some of the flags (like the parallel and the bigventricles etc, to find out if this is caused by one of the flags.)

Anyway it looks more like an IO problem
ncopen: filename "./tmp.mri_nu_correct.mni.53099/nu1.mnc": Not a netCDF file
miopen: MINC package entry point
Error opening ./tmp.mri_nu_correct.mni.53099/nu1.mnc
mincRead(): error reading volume from file ./tmp.mri_nu_correct.mni.53099/nu1.mnc

is that file even there?

Best, Martin

> On 8. Nov 2017, at 19:56, miracle ozzoude <miracooloz@gmail.com> wrote:
>
> Hello FreeSurfer,
>
> While running base step of the longitudinal pipeline, i got the following error (please see the rec-all.log file for more details). How do i solve this problem? Thank you
>
> Best,
> Paul

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