[Freesurfer] Freesurfer and singularity container (bash script)

External Email - Use Caution Hello, I have a question related to the singularity container to run a bash script that includes freesurfer commends. The issue is I have built a singularity container and included the freesurfer license in the container. Recalling and exec

[Freesurfer] nu_correct error

External Email - Use Caution Hello Freesurfer experts, I have a question related to the singularity container to run a bash script that contains a freesurfer's commend "nu_correct". The singularity container only runs as a root user login and gives error as shown below with a g

Re: [Freesurfer] nu_correct error {Disarmed}

: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] nu_correct error CAUTION: External Sender What version are you running? Can you send the recon-all.log file? On 7/16/2020 3:40 PM, Bahrani, Ahmed A. wrote: External Email - Use Caution Hello Freesurfer experts, I have a question related

Re: [Freesurfer] nu_correct error {Disarmed}

Douglas N. Greve Sent: Thursday, July 23, 2020 10:31 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] nu_correct error {Disarmed} CAUTION: External Sender what version of freesurfer are you running? On 7/17/2020 2:24 PM, Bahrani, Ahmed A. wrote: External Email - Use

Re: [Freesurfer] ERROR- input(s) cannot have multiple frames on Recon-all

External Email - Use Caution Maybe for post-processing in case you have multi frames, you can merge all of them (multi-echo MPRages) and then take the RMS to get one 3D volume. Ahmed Ahmed A. Bahrani, Ph.D., Sanders-Brown Center on Aging University of Kentucky __

Re: [Freesurfer] recon-all Longitudinal processing (baseline on 1.5T; followup on 3T)

External Email - Use Caution Depends on the data analysis that you want to do, the magnetic field strength between the two scanners may be a problem that affects the intensity distribution of the image overall that lead to under- or over-estimation. See, the following paper as a