It worked with the register.dat files. Thank you! ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: Wednesday, July 06, 2016 2:07 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mris_preproc subject-volume mismatch
Ah, the problem is with using an lta with 5.3 mris_preproc. I've put version 6 mris_preproc here ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mris_preproc try that and see if it works. Alternatively, you could convert the lta files to register.dat files On 07/06/2016 02:02 PM, Raney, Talia L. wrote: > Hmm, it says that there is one frame in each of the subjects. > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Wednesday, July 06, 2016 1:54 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] mris_preproc subject-volume mismatch > > It must be that one of the ces files has multiple frames. Try running > mri_info --nframes ces.nii.gz > on all of the ces files to see how many frames are in each > > On 07/06/2016 01:39 PM, Raney, Talia L. wrote: >> mris_preproc --target fsaverage --hemi lh --iv >> WADG77j/restingstate/fc.lh-entorhinal.space.lh/lh-entorhinal/ces.nii.gz >> WADG77j/restingstate/bb.register.lta --iv >> WADG77k/restingstate/fc.lh-entorhinal.space.lh/lh-entorhinal/ces.nii.gz >> WADG77k/restingstate/bb.register.lta --projfrac 0.5 --out lh.ces.mgh >> ERROR: number of input volumes (2) does not equal number of subjects (8) >> It apparently thinks one volume is 4 subjects but when checking >> bb.register.lta, it doesn't appear to be the case. >> Thanks! >> Talia >> ________________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve >> [gr...@nmr.mgh.harvard.edu] >> Sent: Wednesday, July 06, 2016 1:19 PM >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] mris_preproc subject-volume mismatch >> >> can you send the terminal output? >> >> On 07/06/2016 11:32 AM, Raney, Talia L. wrote: >>> Hi FreeSurfer users, >>> I'm trying to use mri-preproc to do a group fMRI analysis(based on the >>> tutorial). However, I keep getting an error that the number of input >>> volumes does not equal number of subjects. It seems one volume is counted >>> as 4 subjects. I'm wondering what the command determines to be the subject >>> list when you use the --iv flag. >>> For reference, I'm basing it off of this command: >>> mris_preproc --target fsaverage --hemi lh \ >>> --iv fbirn-101/ces.nii fbirn-101/bb.register.lta \ >>> --iv fbirn-103/ces.nii fbirn-103/bb.register.lta \ >>> --iv fbirn-104/ces.nii fbirn-104/bb.register.lta \ >>> --iv fbirn-105/ces.nii fbirn-105/bb.register.lta \ >>> --iv fbirn-106/ces.nii fbirn-106/bb.register.lta \ >>> --projfrac 0.5 \ >>> --out lh.ces.mgh >>> Thanks! >>> Talia >>> _______________________________________________ >>> 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 >> _______________________________________________ >> 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 > > _______________________________________________ > 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 _______________________________________________ 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 . 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