what is your freeview command line? Do you see a "frame" slider bar?
On 4/6/18 10:46 AM, Crawford, Anna wrote: > I tried without --init-fsl and adding in the --projfrac 0.5 for mri_vol2surf, > but I am still not able to view the time course. > > Thanks, > Anna > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas Greve > <dgr...@mgh.harvard.edu> > Sent: Friday, April 6, 2018 10:21 AM > To: freesurfer@nmr.mgh.harvard.edu > Subject: [EXT] Re: [Freesurfer] Re: Time Series to Surface > > No need to use --init-fsl (if using version 6). For mri_vol2surf add > --projfrac 0.5 to sample in the middle of the ribbon (unless you > specifically want to sample on the gray/white border) > > > On 4/6/18 10:11 AM, Crawford, Anna wrote: >> Hello, >> >> I used the following commands and then opened the surface as an overlay on >> the inflated volume, but I am not about to look at the time series. The view >> time course is grayed out so that I can not click on it. Did I miss a step >> or lose the actual time series somewhere? >> >> bbregister --s S2sdt/subject/ --mov >> /mnt/netScratch/crawforda/Epilepsy/EEG-fMRI/study488/S41sdt/S41vol.mocoafni.hdr >> --reg S41vol.mocoafni.reg.dat --init-fsl --bold --gm-proj-frac 0.5 >> >> mri_vol2surf --src >> /mnt/netScratch/crawforda/Epilepsy/EEG-fMRI/study488/S41sdt/S41vol.mocoafni.hdr >> --out >> /mnt/netScratch/crawforda/Epilepsy/EEG-fMRI/study488/S2sdt/subject/surf/S41mocoafni.vol2surf.mgz >> --srcreg >> /mnt/netScratch/crawforda/Epilepsy/EEG-fMRI/study488/S41sdt/S41vol.mocoafni.reg.dat >> --hemi lh >> >> >> Thank you, >> Anna >> >> ________________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N. Greve >> <dgr...@mgh.harvard.edu> >> Sent: Thursday, April 5, 2018 5:29 PM >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: [EXT] Re: [Freesurfer] Time Series to Surface >> >> Use bbregister. Run with --help to get docs (make sure to use --projfrac >> 0.5). Once you have it on the surface, you can step through each frame >> in freeview >> >> >> On 04/05/2018 01:49 PM, Crawford, Anna wrote: >>> Hello, >>> >>> I have a time series (.hdr/.img) that I want to overlay onto a >>> surface, specifically the inflated surface from the anatomy. I suspect >>> I have to use mri_vol2surf, which requires a source registration >>> file. How do I get this file? Then once I have this file, will I be >>> able to view step by step through the time series on the inflated volume? >>> >>> Thanks for your help, >>> Anna >>> >>> >>> =================================== >>> >>> Please consider the environment before printing this e-mail >>> >>> Cleveland Clinic is currently ranked as the No. 2 hospital in the >>> country by U.S. News & World Report (2017-2018). Visit us online at >>> http://www.clevelandclinic.org for a complete listing of our services, >>> staff and locations. 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Thank you. >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > =================================== > > > Please consider the environment before printing this e-mail > > Cleveland Clinic is currently ranked as the No. 2 hospital in the country by > U.S. News & World Report (2017-2018). Visit us online at > http://www.clevelandclinic.org for a complete listing of our services, staff > and locations. Confidentiality Note: This message is intended for use only by > the individual or entity to which it is addressed and may contain information > that is privileged, confidential, and exempt from disclosure under applicable > law. 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