It looks like they do give the same results. I have to write something to go through everything systematically which I may not get to till tomorrow. Also I am checking to see whether there was some difference in how 001.mgz was created. The source image file on which we are running freesurfer is a defaced.mgz . It's possible that it was sitting in a different directory for the different runs since the runs were executed by a work flow management system (Pegasus) on the Open Science Grid.
Don ________________________________________ 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, February 10, 2016 6:13 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] comparing multiple runs on the same scan That probably means that there is something in the header that is different. It should print a report to the terminal. Do they not give the same results? On 02/10/2016 04:36 PM, Krieger, Donald N. wrote: > mri_diff finds no differences in the mri/orig/001.mgz's but the checksums are > different. > In fact, their sizes are slightly different. > > > >> -----Original Message----- >> From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer- >> boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl >> Sent: Wednesday, February 10, 2016 3:45 PM >> To: Freesurfer support list >> Subject: Re: [Freesurfer] comparing multiple runs on the same scan >> >> Hi Don >> >> are you saying the 001.mgz is different when created from the same dicom >> data? Can you run mri_diff on it to see what the difference is? >> >> cheers >> Bruce >> On Wed, 10 >> Feb 2016, Krieger, Donald N. wrote: >> >>> We would like to confirm that we are getting identical results from >>> multiple freesurfer runs on the same data set. >>> >>> To do so we are comparing identically named files using md5sum and >>> would very much appreciate your thoughts on our results. For multiple >>> files, we concatenate them and pipe the output into md5sum. Below is >>> a table showing what we’ve found so far. I take hope from the >>> positive matches we get from all of the .annot files and from the fact >>> that 001.mgz does not match. This latter suggests that there is a >>> date or something embedded in some of the files from separate runs which >> defeats the match. >>> >>> >>> Please let us know what you know about this and thanks. >>> >>> >>> >>> file(s) >>> >>> md5sum result >>> >>> label/*.annot >>> >>> match >>> >>> label/*.label >>> >>> match >>> >>> mri/wmparc.mgz >>> >>> mismatch >>> >>> surf/qsphere.nofix >>> >>> surf/rh.sphere >>> >>> mismatch >>> >>> mri/orig/001.mgz >>> >>> mismatch >>> >>> mri/transforms/talairach.m3z >>> >>> match >>> >>> mri/transforms/talairach.m3z.inv.x.mgz >>> >>> mri/transforms/talairach.m3z.inv.y.mgz >>> >>> mri/transforms/talairach.m3z.inv.z.mgz >>> >>> mismatch >>> >>> mismatch >>> >>> mismatch >>> >>> >>> >>> Best - Don >>> >>> >>> >>> >>> >>> Don Krieger, Ph.D. >>> >>> Department of Neurological Surgery >>> >>> University of Pittsburgh >>> >>> >>> > _______________________________________________ > 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
