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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ptaylor
September 10, 2018 01:11PM
Do you have ROIs of *all* zero time series? If so, the help description for "-push_thru_many_zeros" notes that it won't push through that situation. 
-push_thru_many_zeros
                     :by default, this program will grind to a halt and
                      refuse to calculate if any ROI contains >10 percent
                      of voxels with null times series (i.e., each point is
                      0), as of April, 2017.  This is because it seems most
                      likely that hidden badness is responsible. However,
                      if the user still wants to carry on the calculation
                      anyways, then this option will allow one to push on
                      through.  However, if any ROI *only* has null time
                      series, then the program will not calculate and the
                      user will really, really, really need to address
                      their masking.
It is "push through *many* zeros", not "push through *all* zeros".

However, I think if you use a "-mask ..." option, where the mask is restricted to where you have nonzero voxels, then you will get results.

This behavior is because people were running 3dNetCorr on data that they didn't know was poorly masked or missing data from ROIs.

--pt
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Subject Author Posted

3dNetCorr '-push_thru_many_zeros' not working

danielbrennan1 September 10, 2018 01:00PM

Re: 3dNetCorr '-push_thru_many_zeros' not working

ptaylor September 10, 2018 01:11PM

Re: 3dNetCorr '-push_thru_many_zeros' not working

danielbrennan1 September 10, 2018 01:25PM

Re: 3dNetCorr '-push_thru_many_zeros' not working

ptaylor September 10, 2018 01:59PM