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and after

« mri_label2vol --seg aseg.mgz --temp rawavg.mgz --o 001_rawavg.mgz --regheader aseg.mgz »

Where can I specify "-cw256" ?

----Messaggio originale----
Da: fischl@nmr.mgh.harvard.edu
Data: 9-apr-2014 16.56
A: "Andrea Tateo"<andrea.tateo@virgilio.it>
Cc: "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu>
Ogg: Re: R: Re: [Freesurfer] Problem of size

Hi Andrea

will it fit in 256? You can try specifying -cw256

cheers
Bruce

On Wed, 9 Apr 2014, Andrea Tateo wrote:

>
> Hi Bruce,
>
> thanks for the quick response.
>
> I report the full error message:
>
>
> WARNING==================++++++++++++++++++++++++=================================
> ======
> The physical sizes are (256.00 mm, 256.00 mm, 312.00 mm), which cannot fit
> in 256^3 mm^3 volume.
> The resulting volume will have 312 slices.
> If you find problems, please let us know (freesurfer@nmr.mgh.harvard.edu).
> ==================================================++++++++++++++++++++++++=
> ==============
>
> $Id: mri_convert.c,v 1.179.2.2 2011/05/16 20:53:47 greve Exp $
> reading from/lustre/home/tateo/Simulazione_FREESURF_GRID_2/Segmentazione/SUB_1006_3/001
> /mri/rawavg.mgz...
> TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
> i_ras = (-1, 0, -0)
> j_ras = (0, 0, -1)
> k_ras = (-0, 1, -0)
> Original Data has (1, 1, 1) mm size and (256, 256, 312) voxels.
> Data is conformed to 1 mm size and 312 voxels for all directions
> changing data type from float to uchar (noscale = 0)...
> MRIchangeType: Building histogram
> Reslicing using trilinear interpolation
> writing to/lustre/home/tateo/Simulazione_FREESURF_GRID_2/Segmentazione/SUB_1006_3/001
> /mri/orig.mgz...
>
> ****************************************
> ERROR! FOV=312.000 > 256
> Include the flag -cw256 with recon-all!
>
>
> Thank you very much
>
> Andrea
>
>
>
>
>
>
> ----Messaggio originale----
> Da: fischl@nmr.mgh.harvard.edu
> Data: 9-apr-2014 14.45
> A: "Andrea Tateo"<andrea.tateo@virgilio.it>, "Freesurfer support
> list"<freesurfer@nmr.mgh.harvard.edu>
> Ogg: Re: [Freesurfer] Problem of size
>
> Hi Andrea
>
> what size are your voxels? Do you really need an FOV that big? If not,
> you could extract the central 256mm using mri_extract. And I believe this
> is just a warning - does recon-all complete?
>
> cheers
> Bruce
>
>
>
> On Wed, 9 Apr 2014,
> Andrea Tateo wrote:
>
> >
> > Hi FreeSurfer expert,
> >
> > I have a problem with command "recon-all".
> >
> > In recon-all.log I can read:
> >
> > «The physical sizes are (256.00 mm, 256.00 mm, 312.00 mm), which cannot
> fit
> > in 256^3 mm^3 volume.
> >
> > The resulting volume will have 312 slices.
> >
> > If you find problems, please let us know
> (freesurfer@nmr.mgh.harvard.edu).»
> >
> > I hope are there anyone to help me.
> >
> > Thank for your help.
> >
> > Andrea
> >
> >
> >
>
>
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