Thank you very much! It works now! Best regards, Veronica
-----Original Message----- From: Sindhuja Tirumalai Govindarajan [mailto:sindh...@nmr.mgh.harvard.edu] Sent: dinsdag 24 april 2012 19:29 To: Popescu, V. Cc: 'freesurfer@nmr.mgh.harvard.edu' Subject: Re: [Freesurfer] mri_convert - returns different image size Hi Veronica, If you still want to use mri_nu_correct.mni, but retain the original dimensions, you can include '--no-float' to the command line. i.e, mri_nu_correct.mni --i <input_vol> --o <output_vol> --no-float That should solve the problem. Regards, Sindhuja > I'll try that. Thank you! > > -----Original Message----- > From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu] > Sent: dinsdag 24 april 2012 16:24 > To: Popescu, V. > Cc: 'freesurfer@nmr.mgh.harvard.edu' > Subject: RE: [Freesurfer] mri_convert - returns different image size > > I see. Then why use our wrapper at all? Just convert to nifti and run N3 > directly. > On Tue, 24 Apr 2012, Popescu, V. wrote: > >> I want to run N3 on it and then use it with FSL, and apply some masks on >> it (that are the size of the original image). >> >> -----Original Message----- >> From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu] >> Sent: dinsdag 24 april 2012 15:50 >> To: Popescu, V. >> Cc: 'freesurfer@nmr.mgh.harvard.edu' >> Subject: RE: [Freesurfer] mri_convert - returns different image size >> >> thanks. And can you tell us what you are trying to achieve? If it's just >> running the recons then it shouldn't matter if it's resampled to 256^3 >> On >> Tue, 24 Apr 2012, Popescu, V. wrote: >> >>> Dear Bruce, >>> Sorry about this! I use mri_nu_correct.mni and the versions (1.7.2.2 >>> and 1.12 respectively) are the versions of the wrapper. >>> Thank you! >>> Best wishes, >>> Veronica >>> >>> -----Original Message----- >>> From: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu] >>> Sent: dinsdag 24 april 2012 15:25 >>> To: Popescu, V. >>> Cc: 'freesurfer@nmr.mgh.harvard.edu' >>> Subject: Re: [Freesurfer] mri_convert - returns different image size >>> >>> Hi Veronica >>> >>> can you send us the command line you are using? N3 by itself doesn't >>> use >>> mri_convert - our wrappers do. >>> >>> cheers >>> Bruce >>> On Tue, 24 Apr 2012, Popescu, V. wrote: >>> >>>> Dear all, >>>> I want to use N3 on nifti images, and I have different versions >>>> installed on two machines. >>>> On one machine I have an older version of N3 (1.7.2.2) which uses >>>> mri_convert version 4 and everything works fine. >>>> On the other machine I have N3 version 1.12 which uses mri_convert >>>> version 5; this one returns a 256/256/256 image volume instead of >>>> the original-like volume. >>>> Is there anything I can do to ?fix? it or is there a problem if I just >>>> use mri_convert version 4 instead of 5 for the newer N3? >>>> Thank you very much in advance! >>>> Best regards, >>>> >>>> Veronica Popescu >>>> VU University Medical Center, Department of Radiology >>>> De Boelelaan 1118, 1081 HZ Amsterdam, The Netherlands >>>> Room PK -1 X 108 >>>> Phone: +31 (0) 204 444 596 >>>> Fax: +31 (0) 204 440 397 >>>> >>>> >>>> >>>> >>>> >>> >>> >>> 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 > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
