please send the command line without variables On 05/28/2014 02:02 PM, Ben Mooneyham wrote: > Hi all, > > I'm trying to transform a mean functional image into subject (T1) > space using mri_vol2vol. Originally, my code worked successfully, but > in attempts to re-run the procedure, both on the same data and on > additional data, I've encountered an error in which the log reports an > "ERROR: Option unknown" and also "--o: command not found." > > I am hoping to resolve this issue; does anyone see where my issue is > arising from? This is especially strange given that I've gotten it to > work before, and I don't think I made any changes to the script > besides changing the directory locations for different subjects' data. > > Here is the mri_vol2vol command as I currently have it: > > mri_vol2vol --reg ${iSub}_bbregister.dat --mov > ${iSub}_Tempfiltered_mean.nii --targ > ${DataDir}/S1/${iSub}/${iSub}_brainmask.gcuts.nii \ > --o ${iSub}_mean_epi_inT1.nii > > The cd is ${DataDir}/S1/${iSub} , which contains the > ${iSub}_bbregister.dat , ${iSub}_Tempfiltered_mean.nii , and > ${iSub}_brainmask.gcuts.nii files. > > Thanks for your help, > > Ben Mooneyham > > -- > Graduate Student > UCSB - Department of Psychological & Brain Sciences > Building 429 Room 102 > (210) 912-6076 > bwmooney...@gmail.com <mailto:bwmooney...@gmail.com> > > > _______________________________________________ > 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.