Re: [Freesurfer] Resting state fMRI preproc-sess registration error

2020-09-18 Thread Wenzhen Zhao
External Email - Use Caution Dear Douglas, I could not locate the log file, so I re-ran it, then copied all outputs here below. bbregister --mov sess01/rest/template.nii.gz --bold --s bw083 --lta register.dof6.lta tmp ./tmp.bbregister.19439 Log file is register.dof6.dat.lo

Re: [Freesurfer] Resting state fMRI preproc-sess registration error

2020-09-18 Thread Douglas N. Greve
Can you send the bbregister log file? On 9/18/2020 12:02 PM, Wenzhen Zhao wrote: > External Email - Use Caution > > Dear Douglas, > > tkregisterfv --mov sess01/rest/template.nii.gz --targ subject/mri/orig.mgz > --reg register.lta > > This is the command that I used to check registration.

Re: [Freesurfer] Resting state fMRI preproc-sess registration error

2020-09-18 Thread Wenzhen Zhao
External Email - Use Caution Dear Douglas, tkregisterfv --mov sess01/rest/template.nii.gz --targ subject/mri/orig.mgz --reg register.lta This is the command that I used to check registration. I also checked them by opening Freeview and manually open the template.nii.gz with re

Re: [Freesurfer] Resting state fMRI preproc-sess registration error

2020-09-18 Thread Douglas Greve
Can you send the commands you used to check the registration ? On 9/16/20 2:24 PM, Wenzhen Zhao wrote: > External Email - Use Caution > > Dear freesurfer developers, > > I am working on preprocessing resting state fMRI and used the following > command. > > $ preproc-sess -s sess01 -fsd r

[Freesurfer] Resting state fMRI preproc-sess registration error

2020-09-16 Thread Wenzhen Zhao
External Email - Use Caution Dear freesurfer developers, I am working on preprocessing resting state fMRI and used the following command. $ preproc-sess -s sess01 -fsd rest -stc siemens -surface fsaverage lhrh -surf-fwhm 5 -mni305-2mm -vol-fwhm 0 -per-session When I tried to