I have not tested it with spm12, so use spm8. There is not currently a way to run the spm init from preproc-sess, so you'll have to run it from register-sess.
On 10/16/2014 12:04 PM, Xiaomin Yue wrote: > Hi Doug, > > Thanks for the promptly response. I do have spm8 and spm12b > installed. Which version should I use? Also, how to change the spm > as the inital registration method in the preproc-sess? > > Xiaomin > > > Date: Thu, 16 Oct 2014 12:00:04 -0400 > > From: gr...@nmr.mgh.harvard.edu > > To: freesurfer@nmr.mgh.harvard.edu > > Subject: Re: [Freesurfer] volume to surface registration problem > > > > > > The problem is probabably that the fsl flirt registration failed and > > that caused bbr to fail. If you have spm and matlab installed, running > > it with > > > > cd /misc/data41/yuex/humanfMRI/human_curvature/subjdata/field090514 > > bbregister --s field --init-spm --6 --bold --mov bold/template.nii > --reg bold/register.dof6.dat --init-reg-out bold/init.register.dof6.dat > > > > > > > > > > On 10/16/2014 11:14 AM, Xiaomin Yue wrote: > > > Hi, > > > > > > When I used preproc-sess processing my data, the registration output > > > is off a great of deal. The functional data was collected using 7T, > > > and the surface was reconstructed successfully from 3T data and was > > > checked visually multiple times. I am using fs5.3 installed on a > > > linux system. Attached is the registration log file. > > > > > > Any suggestions will be appreciated. > > > > > > Xiaomin Yue > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > -- > > Douglas N. Greve, Ph.D. > > MGH-NMR Center > > gr...@nmr.mgh.harvard.edu > > Phone Number: 617-724-2358 > > Fax: 617-726-7422 > > > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > The information in this e-mail is intended only for the person to > whom it is > > addressed. If you believe this e-mail was sent to you in error and > the e-mail > > contains patient information, please contact the Partners Compliance > HelpLine at > > http://www.partners.org/complianceline . If the e-mail was sent to > you in error > > but does not contain patient information, please contact the sender > and properly > > dispose of the e-mail. > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
