Hi freesurfers,
I am using xhemi to map the right hemisphere of each subject to the left hemisphere of the same subject. The first xhemi command works fine, but the 2nd step for mapping the label, I get this error: "Option --src-label unknown"
Do you know how to fix this?
Marissa
please send command line
On 3/17/17 10:38 AM, Marissa Pifer wrote:
Hi freesurfers,
I am using xhemi to map the right hemisphere of each subject to the left hemisphere of the same subject. The first xhemi command works fine, but the 2nd step for mapping the label, I get this error: "Option --src-label unknown"
Do you know how to fix this?
Marissa
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Marcs-MacBook-Pro:SRMC01-1 marchaut$ mris_apply_reg --src-label label/rh.V1_exvivo.thresh.label --trg rh-on-lh.V1_exvivo.thresh.label --streg xhemi/surf/lh.fsaverage_sym.sphere.reg surf/lh.fsaverage_sym.sphere.reg
ERROR: Option --src-label unknown
On Fri, Mar 17, 2017 at 11:26 AM, Douglas Greve greve@nmr.mgh.harvard.edu wrote:
please send command line
On 3/17/17 10:38 AM, Marissa Pifer wrote:
Hi freesurfers,
I am using xhemi to map the right hemisphere of each subject to the left hemisphere of the same subject. The first xhemi command works fine, but the 2nd step for mapping the label, I get this error: "Option --src-label unknown"
Do you know how to fix this?
Marissa
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://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 . 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.
Are you using v5.3? You will need a version 6. You can get this binary for v6 here
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mris_apply_reg
On 03/17/2017 11:47 AM, Marissa Pifer wrote:
Marcs-MacBook-Pro:SRMC01-1 marchaut$ mris_apply_reg --src-label label/rh.V1_exvivo.thresh.label --trg rh-on-lh.V1_exvivo.thresh.label --streg xhemi/surf/lh.fsaverage_sym.sphere.reg surf/lh.fsaverage_sym.sphere.reg
ERROR: Option --src-label unknown
On Fri, Mar 17, 2017 at 11:26 AM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
please send command line On 3/17/17 10:38 AM, Marissa Pifer wrote:Hi freesurfers, I am using xhemi to map the right hemisphere of each subject to the left hemisphere of the same subject. The first xhemi command works fine, but the 2nd step for mapping the label, I get this error: "Option --src-label unknown" Do you know how to fix this? Marissa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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 <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
Yes I am using 5.3.
Thank you!
Marissa
On Fri, Mar 17, 2017 at 12:23 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu
wrote:
Are you using v5.3? You will need a version 6. You can get this binary for v6 here
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mris_apply_reg
On 03/17/2017 11:47 AM, Marissa Pifer wrote:
Marcs-MacBook-Pro:SRMC01-1 marchaut$ mris_apply_reg --src-label label/rh.V1_exvivo.thresh.label --trg rh-on-lh.V1_exvivo.thresh.label --streg xhemi/surf/lh.fsaverage_sym.sphere.reg surf/lh.fsaverage_sym.sphere.reg
ERROR: Option --src-label unknown
On Fri, Mar 17, 2017 at 11:26 AM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
please send command line On 3/17/17 10:38 AM, Marissa Pifer wrote:Hi freesurfers, I am using xhemi to map the right hemisphere of each subject to the left hemisphere of the same subject. The first xhemi command works fine, but the 2nd step for mapping the label, I get this error: "Option --src-label unknown" Do you know how to fix this? Marissa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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 <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
-- 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: 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
Hi Doug,
I'm not sure how to use this binary. Do I need to install it?
Marissa
On Fri, Mar 17, 2017 at 12:23 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu
wrote:
Are you using v5.3? You will need a version 6. You can get this binary for v6 here
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mris_apply_reg
On 03/17/2017 11:47 AM, Marissa Pifer wrote:
Marcs-MacBook-Pro:SRMC01-1 marchaut$ mris_apply_reg --src-label label/rh.V1_exvivo.thresh.label --trg rh-on-lh.V1_exvivo.thresh.label --streg xhemi/surf/lh.fsaverage_sym.sphere.reg surf/lh.fsaverage_sym.sphere.reg
ERROR: Option --src-label unknown
On Fri, Mar 17, 2017 at 11:26 AM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
please send command line On 3/17/17 10:38 AM, Marissa Pifer wrote:Hi freesurfers, I am using xhemi to map the right hemisphere of each subject to the left hemisphere of the same subject. The first xhemi command works fine, but the 2nd step for mapping the label, I get this error: "Option --src-label unknown" Do you know how to fix this? Marissa _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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 <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
-- 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: 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
copy it to $FREESURFER_HOME/bin and then
chmod a+x mris_apply_reg
then
rehash
On 3/21/17 8:23 AM, Marissa Pifer wrote:
Hi Doug,
I'm not sure how to use this binary. Do I need to install it?
Marissa
On Fri, Mar 17, 2017 at 12:23 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Are you using v5.3? You will need a version 6. You can get this binary for v6 here https://gate.nmr.mgh.harvard.edu/safelinks/greve/mris_apply_reg <https://gate.nmr.mgh.harvard.edu/safelinks/greve/mris_apply_reg> On 03/17/2017 11:47 AM, Marissa Pifer wrote: > > Marcs-MacBook-Pro:SRMC01-1 marchaut$ mris_apply_reg --src-label > label/rh.V1_exvivo.thresh.label --trg rh-on-lh.V1_exvivo.thresh.label > --streg xhemi/surf/lh.fsaverage_sym.sphere.reg > surf/lh.fsaverage_sym.sphere.reg > > ERROR: Option --src-label unknown > > > > On Fri, Mar 17, 2017 at 11:26 AM, Douglas Greve > <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> <mailto:greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>>> wrote: > > please send command line > > > On 3/17/17 10:38 AM, Marissa Pifer wrote: >> Hi freesurfers, >> >> I am using xhemi to map the right hemisphere of each subject to >> the left hemisphere of the same subject. The first xhemi command >> works fine, but the 2nd step for mapping the label, I get this >> error: "Option --src-label unknown" >> >> Do you know how to fix this? >> >> Marissa >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >> <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>> > _______________________________________________ Freesurfer mailing > list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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 <http://www.partners.org/complianceline> > <http://www.partners.org/complianceline <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 <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 <https://gate.nmr.mgh.harvard.edu/filedrop2> www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <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
freesurfer@nmr.mgh.harvard.edu
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Douglas Greve -
Douglas N Greve
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Marissa Pifer