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.
There's quite a few ways to do this... If you just want a count of the overlap, you should use 3dABoverlap. You could try something like this (bash syntax):
for aMask in mask*+tlrc.HEAD
do
3dABoverlap -no_automask ${aMask} Reference+tlrc
done
Once you have that working, you can use the -quiet option and pipe the output to a file.