Dear freesurfers,
I would like to know what will be the best way to bring volumes in the individual subject's space to the fsaverage space.
Thanks, Shani
Hi Shani
you can use mri_vol2vol with the talairach.m3z. Alternatively, you can run CVS which will give you more accurate cortical matching and use the transform that it produces.
cheers Bruce On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
Dear freesurfers, I would like to know what will be the best way to bring volumes in the individual subject's space to the fsaverage space.
Thanks, Shani
Hello Can you please direct me to more information about the CVS. Thanks! Shani בתאריך 30 באוק' 2015 14:39, "Bruce Fischl" fischl@nmr.mgh.harvard.edu כתב:
Hi Shani
you can use mri_vol2vol with the talairach.m3z. Alternatively, you can run CVS which will give you more accurate cortical matching and use the transform that it produces.
cheers Bruce On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
Dear freesurfers,
I would like to know what will be the best way to bring volumes in the individual subject's space to the fsaverage space.
Thanks, Shani
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.
Hi Shani,
Sure. You can do
mri_cvs_register --help
and that should give you lots of information.
Alternatively you can also go to https://surfer.nmr.mgh.harvard.edu/fswiki/mri_cvs_register
and read through the presentation that we give at the FS course: http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt
Best, Lilla
On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
Hello Can you please direct me to more information about the CVS. Thanks! Shani
בתאריך 30 באוק' 2015 14:39, "Bruce Fischl" fischl@nmr.mgh.harvard.edu כתב: Hi Shani
you can use mri_vol2vol with the talairach.m3z. Alternatively, you can run CVS which will give you more accurate cortical matching and use the transform that it produces. cheers Bruce On Fri, 30 Oct 2015, Shani Ben Amitay wrote: Dear freesurfers, I would like to know what will be the best way to bring volumes in the individual subject's space to the fsaverage space. Thanks, Shani _______________________________________________ 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.
Dear Lilla and freesurfers,
I hvae tried to rub the mri_CVS_register and got the following error: VolumeMorph load - failed to open input stream. I'm using freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 Any idea how to fix this> Log file atttached Thanks!
Shani
On Fri, Oct 30, 2015 at 11:17 PM, Lilla Zollei lzollei@nmr.mgh.harvard.edu wrote:
Hi Shani,
Sure. You can do
mri_cvs_register --help
and that should give you lots of information.
Alternatively you can also go to https://surfer.nmr.mgh.harvard.edu/fswiki/mri_cvs_register
and read through the presentation that we give at the FS course: http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt
Best, Lilla
On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
Hello Can you please direct me to more information about the CVS. Thanks! Shani
בתאריך 30 באוק' 2015 14:39, "Bruce Fischl" fischl@nmr.mgh.harvard.edu כתב: Hi Shani
you can use mri_vol2vol with the talairach.m3z. Alternatively, youcan run CVS which will give you more accurate cortical matching and use the transform that it produces.
cheers Bruce On Fri, 30 Oct 2015, Shani Ben Amitay wrote: Dear freesurfers, I would like to know what will be the best way to bringvolumes in the individual subject's space to the fsaverage space.
Thanks, Shani _______________________________________________ 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 towhom 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
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.
Hi all,
I am receiving the same error, using the same version of Freesurfer ( freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0).
Was a solution found?
Andrew
On Mon, Nov 2, 2015 at 3:31 AM, Shani Ben Amitay shani.holzer@gmail.com wrote:
Dear Lilla and freesurfers,
I hvae tried to rub the mri_CVS_register and got the following error: VolumeMorph load - failed to open input stream. I'm using freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 Any idea how to fix this> Log file atttached Thanks!
Shani
On Fri, Oct 30, 2015 at 11:17 PM, Lilla Zollei < lzollei@nmr.mgh.harvard.edu> wrote:
Hi Shani,
Sure. You can do
mri_cvs_register --help
and that should give you lots of information.
Alternatively you can also go to https://surfer.nmr.mgh.harvard.edu/fswiki/mri_cvs_register
and read through the presentation that we give at the FS course: http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt
Best, Lilla
On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
Hello Can you please direct me to more information about the CVS. Thanks! Shani
בתאריך 30 באוק' 2015 14:39, "Bruce Fischl" fischl@nmr.mgh.harvard.edu כתב: Hi Shani
you can use mri_vol2vol with the talairach.m3z. Alternatively, youcan run CVS which will give you more accurate cortical matching and use the transform that it produces.
cheers Bruce On Fri, 30 Oct 2015, Shani Ben Amitay wrote: Dear freesurfers, I would like to know what will be the best way to bringvolumes in the individual subject's space to the fsaverage space.
Thanks, Shani _______________________________________________ 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 towhom 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
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
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.
Hi all,
It turns out this error was due to a lack of memory, increasing to ~15GB of memory solved the problem.
Andrew
On Wed, Nov 25, 2015 at 2:50 PM, Andrew Bock bock.andrew@gmail.com wrote:
Hi all,
I am receiving the same error, using the same version of Freesurfer ( freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0).
Was a solution found?
Andrew
On Mon, Nov 2, 2015 at 3:31 AM, Shani Ben Amitay shani.holzer@gmail.com wrote:
Dear Lilla and freesurfers,
I hvae tried to rub the mri_CVS_register and got the following error: VolumeMorph load - failed to open input stream. I'm using freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0 Any idea how to fix this> Log file atttached Thanks!
Shani
On Fri, Oct 30, 2015 at 11:17 PM, Lilla Zollei < lzollei@nmr.mgh.harvard.edu> wrote:
Hi Shani,
Sure. You can do
mri_cvs_register --help
and that should give you lots of information.
Alternatively you can also go to https://surfer.nmr.mgh.harvard.edu/fswiki/mri_cvs_register
and read through the presentation that we give at the FS course: http://surfer.nmr.mgh.harvard.edu/pub/docs/fs.registration.ppt
Best, Lilla
On Fri, 30 Oct 2015, Shani Ben Amitay wrote:
Hello Can you please direct me to more information about the CVS. Thanks! Shani
בתאריך 30 באוק' 2015 14:39, "Bruce Fischl" fischl@nmr.mgh.harvard.edu כתב: Hi Shani
you can use mri_vol2vol with the talairach.m3z. Alternatively,you can run CVS which will give you more accurate cortical matching and use the transform that it produces.
cheers Bruce On Fri, 30 Oct 2015, Shani Ben Amitay wrote: Dear freesurfers, I would like to know what will be the best way to bringvolumes in the individual subject's space to the fsaverage space.
Thanks, Shani _______________________________________________ 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 towhom 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
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
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@nmr.mgh.harvard.edu
-
Andrew Bock -
Bruce Fischl -
Lilla Zollei -
Shani Ben Amitay