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  

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May 08, 2006 09:44PM
Hi! I'm trying to run 3dDeconvolve with the latest version of afni (just updated from the 8/25/2005 version), and while this command previously worked (under the older version), it no longer does. The command lines and error are as below:

3dDeconvolve -input run_1+orig -nfirst 0 -polort 2 \
> -num_stimts 2 -basis_normall 1 \
> -stim_times 1 407hum_corr.1D 'GAM' \
> -stim_label 1 HumCorrect \
> -stim_times 2 407hum_incorr.1D 'GAM' \
> -stim_label 2 HumIncorrect \
> -num_glt 2 \
> -glt_label 1 HumCorrect_HumIncorrect_diff \
> -gltsym 'SYM: +HumCorrect -HumIncorrect' \
> -glt_label 2 HumCorrect_HumIncorrect_ave \
> -gltsym 'SYM: +0.5*HumCorrect +0.5*HumIncorrect' \
> -fitts fit_ts -errts error_ts \
> -xjpeg glm_matrix.jpg -tout -fout -bucket glm_out_Hum_corr_incorr


Program: 3dDeconvolve
Author: B. Douglas Ward
Initial Release: 02 Sept 1998
Latest Revision: 29 Jan 2002

3dDeconvolve Error: Unrecognized command line option: -basis_normall

With the -basis_normall 1, I am trying to make it so that the model time series for each stimulus condition should be normalized to have a peak amplitude of 1. I didn't see this option under 3dDeconvolve -help; is this option no longer available or am I doing something wrong (quite probable)?

Thanks in advance for any help!

Laura
Subject Author Posted

3dDeconvolve error

Laura May 08, 2006 09:44PM

Re: 3dDeconvolve error

Tom Johnstone May 08, 2006 09:56PM

Re: 3dDeconvolve error

Laura May 08, 2006 09:57PM