Show all posts by user
Dear AFNI users-
We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:
https://discuss.afni.nimh.nih.gov
Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.
The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.
Sincerely,
AFNI HQ
History of AFNI updates
Page 3 of 3
Pages: 123
Results 61 - 67 of 67
Hi,
I have written the following script for the Anova analysis. Please let me know if it is correct or I need to change something in it.
# For the 2-way Anova
set dir_chr = /media/sf_D_DRIVE/Freesurfer_Data/Processed/CHR
set dir_cnt = /media/sf_D_DRIVE/Freesurfer_Data/Processed/CNT
set dir_fep = /media/sf_D_DRIVE/Freesurfer_Data/Processed/FEP
set dir_output = /media/sf_D_DRIVE/Freesur
by
Naveed
-
AFNI Message Board
Hi Ziad,
I have checked again, my subject directory contains all the sub directories and files that you mentioned above but for some reason they didn't copied in last email body here are the contents of the /mri directory
UN:~/CHR01/mri> ls
aparc.a2009s+aseg.mgz orig
aparc+aseg.mgz orig.mgz
aseg.auto.mgz orig_nu.log
aseg.auto_noCCseg.label_intensities.txt orig_nu.mg
by
Naveed
-
AFNI Message Board
Hi Ziad,
Following are the outputs
UN:~/CHR01> afni -version
Version AFNI_2011_12_21_1014
[]
-rwxrwxrwx 1 naveed naveed 117595 Sep 12 15:56 lh.ribbon.mgz
-rwxrwxrwx 1 naveed naveed 21685 Sep 11 20:10 mri_nu_correct.mni.log
-rwxrwxrwx 1 naveed naveed 12806 Sep 11 20:07 mri_nu_correct.mni.log.bak
-rwxrwxrwx 1 naveed naveed 1546610 Sep 11 22:02 norm.mgz
-rwxrwxrwx 1 nave
by
Naveed
-
AFNI Message Board
Hi Kristina Simonyan
I tried this method and got the following error.
UN:~> set subj=/home/naveed/freesurfer/subjects/CHR01/
UN:~> mri_surf2vol --surfval surf/rh.thickness --hemi rh --fillribbon --template mri/orig.mgz --volregidentity {$subj} --outvol {$subj}_rh.ribbon.nii
gdiagno = -1
ERROR: cannot recognize the type of surf/rh.thickness
Can you help me.
Best Regards,
Nav
by
Naveed
-
AFNI Message Board
Thank you Ziad,
I got this output after running the command
UN:~/freesurfer/subjects/CHR01> @SUMA_Make_Spec_FS -GIFTI -sid CHR01
++ creating directory './SUMA' for results...
-- found 6 LH surfaces
-- found 6 RH surfaces
echo: No match.
echo: No match.
grep: COR-.info: No such file or directory
grep: COR-.info: No such file or directory
grep: COR-.info: No such file o
by
Naveed
-
AFNI Message Board
Hi,
I want to know that how can I convert FreeSurfer .thickness files to AFNI readable format
I tried the following Command but it gives error
mri_convert /home/naveed/freesurfer/subjects/CHR01/surf/rh.thickness /media/Freesurfer_Data/Processed/AFNI_format/CHR/CHR01/rh.brik
$Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $
reading from /home/naveed/freesurfer/subjects/CH
by
Naveed
-
AFNI Message Board
Page 3 of 3
Pages: 123