Hello, I’ve been having a problem with recon-all lately. I’m relatively new to FreeSurfer and the processes that I have done in the past have been done on sample individualized scans in my lab and I ran into an issue once I started trying to run FreeSurfer on fMRI data provided by our lab. Whenever I try to run the command this is the generated output:
#@# MotionCor Wed Nov 23 11:01:54 EST 2016 Found 1 runs /export/home/jawilks/Desktop/freesurfer/subjects/run_02/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... ERROR: input(s) cannot have multiple frames! /export/home/jawilks/Desktop/freesurfer/subjects/run_02/mri/orig/001.mgz has 160 frames Linux tykwer.engin.umich.edu 2.6.18-416.el5 #1 SMP Wed Oct 26 12:04:18 EDT 2016 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s run_02 exited with ERRORS at Wed Nov 23 11:01:57 EST 2016
The archives have not been of any help and I would greatly appreciate it if someone would be able to help point me in the right direction.
Thank You
Hi James
you need to send us the full command line that you ran and the entire screen output.
cheers Bruce On Wed, 23 Nov 2016, James Wilks wrote:
Hello,I’ve been having a problem with recon-all lately. I’m relatively new to FreeSurfer and the processes that I have done in the past have been done on sample individualized scans in my lab and I ran into an issue once I started trying to run FreeSurfer on fMRI data provided by our lab. Whenever I try to run the command this is the generated output:
#@# MotionCor Wed Nov 23 11:01:54 EST 2016 Found 1 runs /export/home/jawilks/Desktop/freesurfer/subjects/run_02/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... ERROR: input(s) cannot have multiple frames! /export/home/jawilks/Desktop/freesurfer/subjects/run_02/mri/orig/001.mgz has 160 frames Linux tykwer.engin.umich.edu 2.6.18-416.el5 #1 SMP Wed Oct 26 12:04:18 EDT 2016 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s run_02 exited with ERRORS at Wed Nov 23 11:01:57 EST 2016
The archives have not been of any help and I would greatly appreciate it if someone would be able to help point me in the right direction.
Thank You
But before you do, you should note that you cannot use fMRI data as input to FS.
On 11/24/2016 01:11 PM, Bruce Fischl wrote:
Hi James
you need to send us the full command line that you ran and the entire screen output.
cheers Bruce On Wed, 23 Nov 2016, James Wilks wrote:
Hello,I’ve been having a problem with recon-all lately. I’m relatively new to FreeSurfer and the processes that I have done in the past have been done on sample individualized scans in my lab and I ran into an issue once I started trying to run FreeSurfer on fMRI data provided by our lab. Whenever I try to run the command this is the generated output:
#@# MotionCor Wed Nov 23 11:01:54 EST 2016 Found 1 runs /export/home/jawilks/Desktop/freesurfer/subjects/run_02/mri/orig/001.mgz Checking for (invalid) multi-frame inputs... ERROR: input(s) cannot have multiple frames! /export/home/jawilks/Desktop/freesurfer/subjects/run_02/mri/orig/001.mgz has 160 frames Linux tykwer.engin.umich.edu 2.6.18-416.el5 #1 SMP Wed Oct 26 12:04:18 EDT 2016 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s run_02 exited with ERRORS at Wed Nov 23 11:01:57 EST 2016
The archives have not been of any help and I would greatly appreciate it if someone would be able to help point me in the right direction.
Thank You
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