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

History of AFNI updates  

|
December 03, 2009 04:41PM
Hi Anita,

Since the required GOFORIT level is based on the number of warnings
that 3dDeconvolve spits out, it can vary. One "problem", like an
all-zero regressor, might result in many warnings.

The only point of the option is for you to acknowledge that you
understand the warnings and that you consider them to be okay (e.g.
the all-zero regressor is intentional, since this subject made no
mistakes on stimulus A). So you can use a larger number than is
necessary to be sure 3dDeconvolve runs.

But play close attention. If you accidentally use the same stim
times file for 2 different stimuli, it will hurt.

For efficiency, you could keep a large GOFORIT and study the stored
output of the processing script after it is done. If the warnings
suggest a problem, fix it and re-run. Otherwise, you think the
warnings are okay for that subject.

One way to test is to re-run 3dDeoncolve without any unnessary
output options (and change the names of those that are necessary).
If an all-zero regressor should be the only problem for example,
remove that regressor from the command and see if it runs without
any warnings.

Just please, be sure. It is worth the time. :)

- rick

Subject Author Posted

-GOFORIT command

Anita Cservenka December 03, 2009 02:34PM

Re: -GOFORIT command

rick reynolds December 03, 2009 04:41PM