External Email - Use Caution
Hi there,
I am attempting to perform the recon-all command for my T1 nii file.
When I run the recon-all command I get the following error message:
ERROR! FOV=288.000 > 256 Include the flag -cw256 with recon-all! Inspect orig.mgz to ensure the head is fully visible.
I am seeking some support to overcome this issue - I understand this would include the flag -cw256.
Freesurfer version: freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b Platform: OSX 7.2.0 Recon-all.log file attached below
Thank you in advance!
Kind regards, Ellie
Yes, some of the commands inside recon-all do not support a field of view over 256mm, which yours apparently is. I keep meaning to fix this, but we only see it once a year or so and I forget. In any event, just add -cw256 to the command line.
On 9/6/2022 10:51 PM, Ellie Shaw wrote:
External Email - Use Caution
Hi there,
I am attempting to perform the recon-all command for my T1 nii file.
When I run the recon-all command I get the following error message:
ERROR! FOV=288.000 > 256 Include the flag -cw256 with recon-all! Inspect orig.mgz to ensure the head is fully visible.
I am seeking some support to overcome this issue - I understand this would include the flag -cw256.
Freesurfer version: freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b Platform: OSX 7.2.0 Recon-all.log file attached below
Thank you in advance!
Kind regards, Ellie
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Hi,
Thank you for your help!
I have little prior knowledge using freesurfer can I confirm which is probably a silly question - that when adding thr -cw256 to the command line it will look like this:
recon-all -subject subjectname -i invol1 <-i invol2> -all -cw256
Kindest regards, Ellie
On Thu, 8 Sep 2022 at 2:50 am, Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Yes, some of the commands inside recon-all do not support a field of view over 256mm, which yours apparently is. I keep meaning to fix this, but we only see it once a year or so and I forget. In any event, just add -cw256 to the command line.
On 9/6/2022 10:51 PM, Ellie Shaw wrote:
External Email - Use CautionHi there,
I am attempting to perform the recon-all command for my T1 nii file.
When I run the recon-all command I get the following error message:
ERROR! FOV=288.000 > 256 Include the flag -cw256 with recon-all! Inspect orig.mgz to ensure the head is fully visible.
I am seeking some support to overcome this issue - I understand this would include the flag -cw256.
Freesurfer version: freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b Platform: OSX 7.2.0 Recon-all.log file attached below
Thank you in advance!
Kind regards, Ellie
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1c08boskoeLVEhry8-yBikaUXDsnCMC4zHdyPqMouQ2ZP0I... 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 Mass General Brigham Compliance HelpLine at https://secure-web.cisco.com/1WhbE3wgRPGR0d1fukmInD5E41-H6VzqRvNMlG9R0U5Qx-a... < https://secure-web.cisco.com/1WhbE3wgRPGR0d1fukmInD5E41-H6VzqRvNMlG9R0U5Qx-a... . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
Yes, I think that is correct Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Ellie Shaw Sent: Wednesday, September 7, 2022 7:32 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] ERROR! FOV=288.000 > 256
External Email - Use Caution Hi,
Thank you for your help!
I have little prior knowledge using freesurfer can I confirm which is probably a silly question - that when adding thr -cw256 to the command line it will look like this:
recon-all -subject subjectname -i invol1 <-i invol2> -all -cw256
Kindest regards, Ellie
On Thu, 8 Sep 2022 at 2:50 am, Douglas N. Greve <dgreve@mgh.harvard.edumailto:dgreve@mgh.harvard.edu> wrote: Yes, some of the commands inside recon-all do not support a field of view over 256mm, which yours apparently is. I keep meaning to fix this, but we only see it once a year or so and I forget. In any event, just add -cw256 to the command line. On 9/6/2022 10:51 PM, Ellie Shaw wrote:
External Email - Use Caution Hi there,
I am attempting to perform the recon-all command for my T1 nii file.
When I run the recon-all command I get the following error message:
ERROR! FOV=288.000 > 256 Include the flag -cw256 with recon-all! Inspect orig.mgz to ensure the head is fully visible.
I am seeking some support to overcome this issue - I understand this would include the flag -cw256.
Freesurfer version: freesurfer-darwin-macOS-7.2.0-20210713-aa8f76b Platform: OSX 7.2.0 Recon-all.log file attached below
Thank you in advance!
Kind regards, Ellie
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freesurfer@nmr.mgh.harvard.edu
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Douglas N. Greve -
Ellie Shaw -
Fischl, Bruce