[Freesurfer] Flag(s) for parallel processing

This says "-openmp after -parallel", this says "export ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS=2", while this says

[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

Re: [Freesurfer] error in longitudinal stream fs7.1 ERROR: Number of filenames for --iscalein should agree with number of init LTAs (--ixforms)! worked in fs6

External Email - Use Caution Thanks Sure, Here is the log file. Knut Jørgen On 16/07/2020 16:12, Douglas N. Greve wrote: Can you send the log file? On 7/15/2020 1:51 PM, Knut J Bjuland wrote: External Email - Use Caution Dear freesurfer experts I was able to run

Re: [Freesurfer] PETSurfer analysis question

The NoPVC and SGTM values are reasonable. The MG value is pretty crazy. I don't put stock in MZ. Is the MG value much higher than SGTM in other ROIs? What is your mri_gtmpvc command? On 7/16/2020 4:38 AM, Ferraro, Pilar wrote: External Email - Use Caution Hi Freesurfer experts,

Re: [Freesurfer] mri_fieldsign error

Is the fMRI data in there somewhere? I can't find it On 7/15/2020 2:21 PM, Xiaomin Yue wrote: External Email - Use Caution Hi Doug, The file LOO.tar.gz has been uploaded to transfer/incoming directory on the ftp server.  Please let me know what else you need to solve this problem.

Re: [Freesurfer] fMRI paired analysis

Yes, use --paired-diff. Make sure your sessions are arranged subj01.tp1 subj01.tp2 subj02.tp1 subj02.tp2 ... On 7/16/2020 3:10 AM, Agnieszka Sabisz wrote: External Email - Use Caution Dear Freesurfer team! I'm trying to make a statistics of resting state fMRI data in fsfast. I have

Re: [Freesurfer] error in longitudinal stream fs7.1 ERROR: Number of filenames for --iscalein should agree with number of init LTAs (--ixforms)! worked in fs6

Can you send the log file? On 7/15/2020 1:51 PM, Knut J Bjuland wrote: External Email - Use Caution Dear freesurfer experts I was able to run the same subects on the longitudinal stream using FS 6 , but when I use FS7.1 I got this error RROR: Number of filenames for --iscalein

[Freesurfer] PETSurfer analysis question

External Email - Use Caution Hi Freesurfer experts, I’ve run a PETSurfer analysis in order to compare mean uptake values of ROIs obtained with different methods: No PVC, SGTM, MG and MZ. However, I’ve now extracted the mean values and they are extremely heterogeneous. As an

[Freesurfer] fMRI paired analysis

External Email - Use Caution Dear Freesurfer team! I'm trying to make a statistics of resting state fMRI data in fsfast. I have one group of patients and two timepionts. I read how to perform the paired analysis in structural studies in freesurfer. In structural images the

Re: [Freesurfer] error in longitudinal stream fs7.1 ERROR: Number of filenames for --iscalein should agree with number of init LTAs (--ixforms)! worked in fs6

External Email - Use Caution It ran on a computer with CentOS Linux release 7.8.2003 (Core) and Freesurfer was build using easybuild by the cluster support staff. Knut Jørgen On 15/07/2020 19:51, Knut J Bjuland wrote: External Email - Use Caution Dear freesurfer