Endless thanks. I'll try and update you. Andrea
----Messaggio originale---- Da: fis...@nmr.mgh.harvard.edu Data: 9-apr-2014 17.16 A: "Andrea Tateo"<andrea.ta...@virgilio.it> Cc: "Freesurfer support list"<freesurfer@nmr.mgh.harvard.edu> Ogg: Re: R: Re: R: Re: [Freesurfer] Problem of size on the recon-all command line On Wed, 9 Apr 2014, Andrea Tateo wrote: > I use > « recon-all -debug -s 001 -autorecon-all » > > > 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: fis...@nmr.mgh.harvard.edu > Data: 9-apr-2014 16.56 > A: "Andrea Tateo"<andrea.ta...@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 $ > > readingfrom/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 > > writingto/lustre/home/tateo/Simulazione_FREESURF_GRID_2/Segmentazione/SUB_1006_3/0 > 01 > > /mri/orig.mgz... > > > > **************************************** > > ERROR! FOV=312.000 > 256 > > Include the flag -cw256 with recon-all! > > > > > > Thank you very much > > > > Andrea > > > > > > > > > > > > > > ----Messaggio originale---- > > Da: fis...@nmr.mgh.harvard.edu > > Data: 9-apr-2014 14.45 > > A: "Andrea Tateo"<andrea.ta...@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 > > > > > > > > > > > > > > > The information in this e-mail is intended only for the person to whom it > is > > addressed. If you believe this e-mail was sent to you in error and the > > e-mail > > contains patient information, please contact the Partners Compliance > > HelpLine at > > http://www.partners.org/complianceline . If the e-mail was sent to you in > > error > > but does not contain patient information, please contact the sender and > > properly > > dispose of the e-mail. > > > > > > > > > > >
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