does it occur if you run it outside of recon-all? Do you have enough free
ram? If so, you can filedrop us the dataset and we can try to replicate and
fit ix.

On Tue, 6 Nov 2018, 1013364183 wrote:

>
>         External Email - Use Caution        
>
> Dear Bruce,
>   I found the error location in the recon-all.log folder. Here is the place where it went wrong??I
> don't think it's the reason for insufficient memory..
>   ''mri_convert.bin: putget.c:322: fill_NC_var: Assertion `chunksz % 4 == 0' failed.''
>   This data is ok when we run with versions prior to freesurfer 6.0. But after we run the 6.0
> version and set the expert file, this error will occur.Do I need to step through the instructions to
> see the problem? How should this error be solved?
>
> Thanks in advance
>
> yours yujunjie
>
> ------------------ ???????? ------------------
> ??????: "Bruce Fischl"<fischl@nmr.mgh.harvard.edu>;
> ????????: 2018??11??6??(??????) ????9:40
> ??????: "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu>;
> ????: Re: [Freesurfer] Recon-all run error
>
> that certainly looks like something is running out of ram. Can you run
> the command that failed directly on the command line and see if it works?
> Was anything else running on the machine at the time? We do report total
> and free memory at the start of the recon in the recon-all.log file
>
> cheers
> Bruce
> On Tue,
> 6 Nov 2018, 1013364183 wrote:
>
> >
> >         External Email - Use Caution        
> >
> > Dear FS,
> > When we run ??recon-all?? with a 5GB high-resolution image, core dumped appears when the
> mri_convert
> > command is executed. The specific errors are as follows:
> > /opt/el7/pkgs/freesurfer/freesurfer_6.0/bin/mri_convert: line 3: 29235 Aborted (core dumped)
> > mri_convert.bin "$@"
> > ERROR: converting to minc
> > We want to know if our high resolution image is too large for freesurfer to handle, or our
> computer
> > memory (64GB running memory) is limited.
> >
> > Thanks a lot in advance!
> > yours sincerely,
> > yu junjie
> >
> >
> >
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