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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
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The output is:
cat surf.smooth.params.1D
Comment: #!ascii version in FreeSurfer format (SUMA)
#Final smoothing parameters via master:
#Niter Sigma OutputFWHM
19 0.3570 -1.000
by
erin
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AFNI Message Board
Hi, I've been getting errors with afni_proc, where it fails on the blur step. After a bit of digging, the problem seems to be that the file that's created to estimate the blur parameters (surf.smooth.params.1D) is giving some leading zeros when read by 1dcat, which means that the afni_proc script is asking for a sigma of zero.
The final lines of the afni_proc output are:
if ( !
by
erin
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AFNI Message Board
Hi,
I'm using Mac OSX (Sierra) and I had the problem that's been mentioned before, where @SUMA_Make_Spec_FS hits a library error. I followed the instructions to disable SIPS using csrutil, and all worked fine.
However, last week I updated my afni binaries (using @update.afni.binaries) and then I received the same error when running @SUMA_Make_Spec_FS, that is:
-- running
by
erin
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AFNI Message Board
Thanks for the advice, I'll try both ways and check if there's any advantage to aligning to the within-subject anatomical.
by
erin
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AFNI Message Board
Thanks for the reply. I thought about that too, and perhaps that's the better way to go. I wanted to use the individual session T1s for alignment in order to improve the alignment (assuming that afni should be able to do a better job of precisely aligning 2 anatomical images from different sessions than it would for an anatomical and EPI image acquired in different sessions).
by
erin
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AFNI Message Board
I'm creating a pipeline for analyzing fMRI data for our lab. We don't use talaraich or other standard spaces since we define ROIs functionally for each subject (i.e. we don't average data across subjects at the whole brain level), and we want to transform the data as little as possible.
However, we do want to align data for the same subject across multiple scanning sessions. We
by
erin
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AFNI Message Board