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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Leonard Leyba
December 19, 2003 02:23PM
Hi

I'm creating a brain mask using 3dAutomask from raw data that has been
registered. When I multiply this mask (all 1's and 0's) by my 3dFim+
created dataset (both positive and negative voxel values), I lose my
negative values even within the mask areas with values of 1.
Why is this? How can I retain those negative values?

These are my commands:

3dfim+ -nfirst 1 -polort 1 -input Expt_{$expt}_SMO+orig.HEAD -ideal_file
\ LF_121403_{$expt}.1D -out All -bucket
Expt_{$expt}_FFT_FIM

3dAutomask -prefix automask_{$expt} Expt_{$expt}_3dreg+orig

3dcalc -a automask_{$expt}+orig -b Expt_{$expt}_FFT_FIM+orig \
-prefix Expt_{$expt}_Masked_FFT_FIM+orig -expr "a*b"

(I've read -help, the message board, and searched the README's)

Thanks.

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Subject Author Posted

3dAutomask - How do you keep negative values?

Leonard Leyba December 19, 2003 02:23PM

Re: 3dAutomask - How do you keep negative values?

rick reynolds December 19, 2003 03:01PM