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  

|
October 07, 2021 01:40PM
Hi Rick,

Thanks for the quick reply!

If I'm using afni_proc.py, it failed at the regress step. Sometimes it looks something like

voxel loop: 012
killed

If I'm using 3dDeconvolve, it's the same situation.

The input to this step is usually around 32GB combining all the pb04* files. And the computers I'm running on are all iMac computers with MacOS. I try to run them on 64GB RAM machines, some succeeded and some failed. I don't understand why it took 5 whole days to finish. I checked the activity monitor and it seems there is plenty of RAM free...And if possible, I really want to run them on 32GB machines too.

I'll try the option -regress_compute_fitts with afni_procy.py. If I started with 3dDeconvolve, is there any way to reduce the RAM it used?

BTW, on the related note: every time I try to add some new contrasts to my analysis, I need to ran 3dDeconvolve with all the stim and glt labels. I don't know if it's the single stim labels or the glt contrasts that are taking so much time to fit. Is there any way to just add a new glt contrast quickly?

Thank you so much!

--Lingyan
Subject Author Posted

3dDeconvolve "killed" because out of memory

swallowwly October 07, 2021 12:43PM

Re: 3dDeconvolve "killed" because out of memory

rick reynolds October 07, 2021 01:16PM

Re: 3dDeconvolve "killed" because out of memory

swallowwly October 07, 2021 01:40PM

Re: 3dDeconvolve "killed" because out of memory

swallowwly October 08, 2021 11:01AM

Re: 3dDeconvolve "killed" because out of memory

rick reynolds October 08, 2021 11:33AM

Re: 3dDeconvolve "killed" because out of memory

swallowwly October 08, 2021 12:19PM

Re: 3dDeconvolve "killed" because out of memory

rick reynolds October 08, 2021 03:39PM

Re: 3dDeconvolve "killed" because out of memory

swallowwly October 11, 2021 12:05AM

Re: 3dDeconvolve "killed" because out of memory

Daniel Glen October 08, 2021 12:57PM

Re: 3dDeconvolve "killed" because out of memory

swallowwly October 08, 2021 01:48PM