Dear Freesurfer experts,
I am a beginner in the neuroscience community and I am trying to convert a
MNI305 mask to a ICBM152/MNI152 mask. How can I do that? I have Freesurfer
downloaded and Guest Additions installed(don't know if i need FSL or how to get
it to work with FS), but when i try to run this solution from a previous
correspondence between Yigal Adam and you guys, i am stuck even at the first
step:
1. Register functional (template.nii) to anatomical matrix (may
already be done in fsfast)
bbregister --s $subject --bold --init-fsl \
--mov template.nii --reg register.dof6.dat
2. Register anatomical to mni152:
mni152reg --s $subject
Creates $SUBJECTS_DIR/$subject/mri/transforms/reg.mni152.2mm.dat
3. Check registration
tkregister2 --mov $FSLDIR/data/standard/MNI152_T1_2mm.nii.gz \
--reg $SUBJECTS_DIR/$subject/mri/transforms/reg.mni152.2mm.dat
4. Create registration between functional and mni152
mri_matrix_multiply -im register.dof6.dat \
-iim reg.mni152.2mm.dat -om reg.mni152.dat
5. Check registration
tkregister2 --targ $FSLDIR/data/standard/MNI152_T1_2mm.nii.gz \
--mov template.nii --reg reg.mni152.dat
6. Resample func to mni152 space
mri_vol2vol --targ $FSLDIR/data/standard/MNI152_T1_2mm.nii.gz \
--mov template.nii --reg reg.mni152.dat --o template.mni152.nii?
and it says ERROR: cannot find --bold in /usr/local/freesurfer/subjects
Am I doing something wrong with the setup?(I haven't configured anything
besides downloading FS and its Guest Additions).
Please help, i've been stuck for weeks.
?Thank you!
?
Regards,
--PK?
_______________________________________________
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.
