External Email - Use Caution
Hi everyone,
I tried to run the reconstruction with the command line: recon-all -i ANTS_QS_template_MNI.nii.gz -subject CGBT -all
then I got the error message: talairach_avi --i orig_nu.mgz --xfm transforms/talairach.auto.xfm talairach_avi log file is transforms/talairach_avi.log... ERROR: mpr2mni305 failed, see transforms/talairach_avi.log Linux ramones 5.10.0-28-amd64 #1 SMP Debian 5.10.209-2 (2024-01-31) x86_64 GNU/Linux
And this is the error message in the talairach_avi.log: imgrege: no voxels in register ERROR: 'imgreg_4dfp /software/freesurfer/6.0.0p1/debian-bullseye-amd64/average/711-2C_as_mni_average_305 /software/freesurfer/6.0.0p1/debian-bullseye-amd64/average/711-2B_as_mni_average_305_mask talsrcimg_g11 none talsrcimg_to_711-2C_as_mni_average_305_t4 1283' failed! status=254 ERROR: mpr2mni305 execution aborted
Does anyone know how to solve this problem? Thanks so much!
Best, Chen ----- Original Message -----
From: "Chen Yang" yangc@cbs.mpg.de To: "freesurfer" freesurfer@nmr.mgh.harvard.edu Sent: Monday, 20 May, 2024 13:59:13 Subject: [Freesurfer] Recon-all for a common template
External Email - Use Caution
Dear Freesurfer Developers,
my data is from 50 preschoolers and I created my own group template from these kids using the 'buildtemplateparallel' scripts from ANTs. I got a nifti file (see attached). Then we'd like to process this group template in Freesurfer to reconstruct the cortical surfaces as the individual brain images. My question is, how can i do the recon-all with the template? Because I only have this template file I feel I don't have enough input files(?).
Thanks in advance!
Best regards, Chen
-- Chen Yang
PhD Student Independent Research Group 'Milestones of Early Childhood Development' Max Planck Institute for Human Cognitive and Brain Sciences
Email:yangc@cbs.mpg.de
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/152_yjWgWiW7QaUCNWdHFdgPDgbGmCDd24wrNL32r-4bja7... 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 Mass General Brigham Compliance HelpLine at https://secure-web.cisco.com/11mMZdD6LhDXEAAcaJ4Xy45caoyjFwMiMVfuaYZa2H53fEg... https://secure-web.cisco.com/11mMZdD6LhDXEAAcaJ4Xy45caoyjFwMiMVfuaYZa2H53fEgoAlcxYFnPNAEvuKibSz7sTalF3-60W_3rEsc-BISUkLSeThSZls51MwfywgHe4znvdORkACP70In-BECXqW7npDFdSLeZCyWE6pgU8llrsGfB0rzuxH3J_i2-hq1NJFGzciLCEXMpTgybN0L6kieSOJRb1dF9jS4nm3XSzAp16I1RbAu0p7ytwQSJL_v7gESlUx85DZAUAnUFN4dLPHjk0Gzcdc3BaVL7atjpOOBvb8pKC3DbF9dcBzjwJkuAzNobaTnF1qSWCpWUOWi04nRWPis06clEkXteO2SXlLg/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.