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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cameron
February 26, 2021 04:49PM
Hello Colleagues,

I recently installed AFNI_21.0.12 on Ubuntu 20.04 (built Feb 23 or 24, 2021) and noticed that 3dROIstats was very slow. Taking 2.5 minutes for 3.5x3.5x4 data with 300 TRs. I creating a whole brain mean time course using a whole-brain mask (e.g. 1 inside the brain 0 outside). I verified this same behavior on Ubuntu 16.04. I get the same slow performance with and without PIGZ enabled using environment variables.

I built the latest code from the AFNI github repo using Makefile.linux_ubuntu_16_64 on Ubuntu 20.04 and get the same slow behavior.

AFNI_20.0.04:Linux_ubuntu_64 built Jan 29, 2020 does the same extraction takes 1 second on Ubuntu 16.04 and 20.04.

Any thoughts on how to fix this? In the mean time, is there a place where we can download an earlier build? We will be building a new container for CPAC soon and would like to avoid this problem.

Cheers,
cameron
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Subject Author Posted

AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

cameron February 26, 2021 04:49PM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

ptaylor February 26, 2021 05:12PM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

Daniel Glen February 28, 2021 01:05AM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

cameron March 01, 2021 01:05PM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

cameron March 01, 2021 01:02PM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

ptaylor March 02, 2021 09:49AM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

cameron March 03, 2021 10:03PM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

rick reynolds March 04, 2021 10:10AM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

rick reynolds March 04, 2021 11:58AM

Re: AFNI_21.0.12 Slow performance on Ubuntu 16.04 and 20.04

cameron March 04, 2021 02:08PM