Dear Doug, I'm trying to follow your indication but, please, could you explicate what's meaning "subjet with" and where I should put it?Could you show me the correct command line, please? The wrong command line is mri_label2label --srcsubject fsaverage --srclabel rh.perirhinal.label --trgsubject Con01 --trglabel Con01/label/rh.perirhinal.label --hemi rh --regmethod surface Many thanks,
Stefano
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 28-mar-2013 18.32 A: stdp82@virgilio.it Cc: freesurfer@nmr.mgh.harvard.edu Ogg: Re: R: Re: [Freesurfer] perirhinal analysis
If the source subject is subject_prova then you need to spec that subjet 2with --srcsubject (instead of fsaverage) doug
On 03/28/2013 01:11 PM, stdp82@virgilio.it wrote:
Yes, it is located in /Applications/freesurfer/subjects/subject_prova/Con01/label/rh.perirhinal.label.
Stefano
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 28-mar-2013 17.46 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] perirhinal analysis
It says "no such file or directory" does rh.perifhyinal.label exist?
On 03/28/2013 11:55 AM, stdp82@virgilio.it wrote:
Hi list,
I'm running perirhinal analysis with this error:
mri_label2label --srcsubject fsaverage --srclabel rh.perirhinal.label --trgsubject Con01 --trglabel Con01/label/rh.perirhinal.label --hemi rh --regmethod surface
srclabel = rh.perirhinal.label srcsubject = fsaverage trgsubject = Con01 trglabel = Con01/label/rh.perirhinal.label regmethod = surface
srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0
SUBJECTS_DIR/Applications/freesurfer/subjects/subject_prova FREESURFER_HOME /Applications/freesurfer Loading source label. No such file or directory mri_label2label: could not open label file rh.perirhinal.label No such file or directory ERROR reading rh.perirhinal.label
My $SUBJECTS_DIR=/Applications/freesurfer/subjects/subject_prova and rh.perirhinal.label exist and it is located in /Applications/freesurfer/subjects/subject_prova/Con01/label
Thanks,
Stefano
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 greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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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.
Try mri_label2label --srcsubjectsubject_prova --srclabel rh.perirhinal.label --trgsubject Con01 --trglabel Con01/label/rh.perirhinal.label --hemi rh --regmethod surface
also note that if you run mri_label2label with only the --help argument, it will print out help as to what each flag means as well as examples. Reading the help is a good approach when you cannot get immediate assistant from the list. You'll also learn about how the command is supposed to work. Pretty soon, you'll be the one helping others!
doug
On 04/02/2013 04:37 AM, stdp82@virgilio.it wrote:
Dear Doug,
I'm trying to follow your indication but, please, could you explicate what's meaning "subjet with" and where I should put it? Could you show me the correct command line, please?
The wrong command line is mri_label2label --srcsubject fsaverage --srclabel rh.perirhinal.label --trgsubject Con01 --trglabel Con01/label/rh.perirhinal.label --hemi rh --regmethod surface
Many thanks,
Stefano
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 28-mar-2013 18.32 A: stdp82@virgilio.it Cc: freesurfer@nmr.mgh.harvard.edu Ogg: Re: R: Re: [Freesurfer] perirhinal analysis
If the source subject is subject_prova then you need to spec that subjet 2with --srcsubject (instead of fsaverage) doug
On 03/28/2013 01:11 PM, stdp82@virgilio.it wrote:
Yes, it is located in /Applications/freesurfer/subjects/subject_prova/Con01/label/rh.perirhinal.label.
Stefano
----Messaggio originale---- Da: greve@nmr.mgh.harvard.edu Data: 28-mar-2013 17.46 A: freesurfer@nmr.mgh.harvard.edu Ogg: Re: [Freesurfer] perirhinal analysis
It says "no such file or directory" does rh.perifhyinal.label exist?
On 03/28/2013 11:55 AM, stdp82@virgilio.it wrote:
Hi list,
I'm running perirhinal analysis with this error:
mri_label2label --srcsubject fsaverage --srclabel rh.perirhinal.label --trgsubject Con01 --trglabel Con01/label/rh.perirhinal.label --hemi rh --regmethod surface
srclabel = rh.perirhinal.label srcsubject = fsaverage trgsubject = Con01 trglabel = Con01/label/rh.perirhinal.label regmethod = surface
srchemi = rh trghemi = rh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs = 0, 0 Use ProjFrac = 0, 0 DoPaint 0
SUBJECTS_DIR/Applications/freesurfer/subjects/subject_prova FREESURFER_HOME /Applications/freesurfer Loading source label. No such file or directory mri_label2label: could not open label file rh.perirhinal.label No such file or directory ERROR reading rh.perirhinal.label
My $SUBJECTS_DIR=/Applications/freesurfer/subjects/subject_prova and rh.perirhinal.label exist and it is located in /Applications/freesurfer/subjects/subject_prova/Con01/label
Thanks,
Stefano
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 greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: 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.
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
freesurfer@nmr.mgh.harvard.edu
-
Douglas N Greve -
stdp82＠virgilio.it