AFNI Message Board

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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krasmussn
November 20, 2015 01:45PM
We have run afni_restproc.py successfully, but now we are trying it with the FD and DVARS options. We are getting an error saying that we have to have the -align option on. However, in the past we have kept it off because we are handing it preprocessed data. With align on, it runs 3dvolreg then tries to do a SkullStrip on the functional image using 3dSkullStrip. It appears to fail when using 3dSkullStrip on the functional image. The error we are getting is:

Warning 3dSkullStrip (SUMA_3dSkullStrip.c:1555):
Input dataset has a very low value range.
If stripping fails, repeat with option -fac 1000
Fatal Signal 11 (SIGSEGV) received

We understand why align has to be on for FD and DVARS but is it a bug that it is trying to do 3dSkullStrip on a functional image? Or, is our functional image problematic so that 3dSkullStrip is not working here?

Thank you for your help.
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Subject Author Posted

afni_restproc

krasmussn November 20, 2015 01:45PM

Re: afni_restproc

rick reynolds November 23, 2015 01:41PM

Re: afni_restproc

krasmussn November 23, 2015 02:04PM

Re: afni_restproc

Rayus November 24, 2015 12:07PM

Re: afni_restproc

krasmussn November 24, 2015 04:15PM

Re: afni_restproc

rick reynolds November 25, 2015 01:42PM

Re: afni_restproc

krasmussn November 24, 2015 04:14PM

Re: afni_restproc

rick reynolds November 25, 2015 01:21PM