Re: [Freesurfer] mri_extract issue

cropping if you can. Cheers Bruce From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Jie Zhao Sent: Saturday, September 26, 2020 7:26 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] mri_extract issue External Email - Use Caution Hi, Freesurfer

[Freesurfer] mri_extract issue

External Email - Use Caution Hi, Freesurfer Team My input volume dimension is 248*176*320, so I use mri_extract scale to 256*256*256. However, the output volume lose some info. eg.some head info. disappeared in sagiital slice. How can scale my input voluem to 256*256*256,

Re: [Freesurfer] recon-all error

; > Hi Jie, > > Is this a scan of a non-human primate? > > Cheers > Bruce > > -Original Message- > From: freesurfer-boun...@nmr.mgh.harvard.edu > On Behalf Of Jie Zhao > Sent: Thursday, September 3, 2020 9:34 AM > To: Freesurfer support list > Sub

Re: [Freesurfer] recon-all error

here https://gate.nmr.mgh.harvard.edu/safelinks/greve/tkregisterfv On 8/29/2020 11:26 AM, Jie Zhao wrote: External Email - Use Caution Hi All I tryed the tkregister2 to change the postion for Talairach Registration,but some error occured in the tkregister, so some button were not functioning we

Re: [Freesurfer] recon-all error

n we see this type of failure it is because the direction cosines > in the input volume are incorrect (typically because the volume was at some > point converted to analyze format). Not always, but usually. > > Cheers > Bruce > > > -Original Message- > From: fre

Re: [Freesurfer] recon-all error

y using tkregisterfv instead, available here https://gate.nmr.mgh.harvard.edu/safelinks/greve/tkregisterfv On 8/29/2020 11:26 AM, Jie Zhao wrote: External Email - Use Caution Hi All I tryed the tkregister2 to change the postion for Talairach Registration,but some error occured in th

Re: [Freesurfer] recon-all error

of failure it is because the > > direction cosines in the input volume are incorrect (typically because the > > volume was at some point converted to analyze format). Not always, but > > usually. > > > > Cheers > > Bruce > > > > > >

Re: [Freesurfer] recon-all error

e might be something else going wrong here based on those p values. > Have you sourced freesurfer in your environment? Adding the freesurfer bin > dir to your PATH will provide access to binaries, but there are a few other > PATH variables and settings that get configured by running `s

Re: [Freesurfer] recon-all error

ESURFER_HOME/SetUpFreeSurfer.sh`. > > best > Andrew > > On 8/24/20, 10:12 AM, "freesurfer-boun...@nmr.mgh.harvard.edu on behalf of > Jie Zhao" zjuzhao...@zju.edu.cn> wrote: > > External Email - Use Caution > > Hi, Ti

Re: [Freesurfer] recon-all error

> > External Email - Use Caution > > What happems if you type 'mri_ca_label' in your shell? > > Did you setup your PATH environment variable to include the Freesurfer binary > directory? > > Tim > > > On August 23, 2020 at 9:34 AM Ji

[Freesurfer] recon-all error

-Ubuntu SMP Tue Apr 24 06:16:15 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux Segmentation fault ERROR: Executable 'mri_ca_label -all-info failed! Is it missing from the distribution?' What can I do to fix this? Thanks Best regards Jie Zhao ___