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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April 24, 2013 11:38AM
when I run that command in the results folder, here is the output:

pb01.302a.r01.tshift 3.796875 -3.796875 3.800000 64 64 36 163
pb01.302a.r02.tshift 3.796875 -3.796875 3.800000 64 64 36 163
pb01.302a.r03.tshift 3.796875 -3.796875 3.800000 64 64 36 163
pb01.302a.r04.tshift 3.796875 -3.796875 3.800000 64 64 36 163


and here is the afni_proc.py command I am using:

$ afni_proc.py -subj_id 302a -dsets 302a_run1+orig 302a_run2+orig 302a_run3+orig 302a_run4+orig -blocks tshift volreg blur mask scale regress -copy_anat 302a_anat+orig -do_block align tlrc -volreg_align_to last -volreg_align_e2a -volreg_tlrc_warp -blur_in_automask -regress_stim_times stimes.NT1.1D stimes.NT2.1D stimes.NT3.1D stimes.ND1.1D stimes.ND2.1D stimes.ND3.1D stimes.ST1.1D stimes.ST2.1D stimes.ST3.1D stimes.SD1.1D stimes.SD2.1D stimes.SD3.1D stimes.SAM.1D -test_stim_files no -regress_stim_labels NT1 NT2 NT3 ND1 ND2 ND3 ST1 ST2 ST3 SD1 SD2 SD3 SAM -regress_basis 'TENT(0,16,9)' -regress_opts_3dD -num_glt 16 -GOFORIT 13 -allzero_ok
-gltsym 'SYM: +NT1 +NT2 +NT3 -ND1 -ND2 -ND3'
-glt_label 1 NTvND
-gltsym 'SYM: +ST1 +ST2 +ST3 -SD1 -SD2 -SD3'
-glt_label 2 STvSD
-gltsym 'SYM: +NT1 +NT2 +NT3 -ST1 -ST2 -ST3'
-glt_label 3 NTvST
-gltsym 'SYM: +ND1 +ND2 +ND3 -SD1 -SD2 -SD3'
-glt_label 4 NDvSD
-gltsym 'SYM: +NT1 -NT2 -NT3'
-glt_label 5 NTrep
-gltsym 'SYM: +ND1 -ND2 -ND3'
-glt_label 6 NDrep
-gltsym 'SYM: +ST1 -ST2 -ST3'
-glt_label 7 STrep
-gltsym 'SYM: +SD1 -SD2 -SD3'
-glt_label 8 SDrep
-gltsym 'SYM: +NT1 +ST1 -NT2 -NT3 -ST2 -ST3'
-glt_label 9 Trep
-gltsym 'SYM: +ND1 +SD1 -ND2 -ND3 -SD2 -SD3'
-glt_label 10 Drep
-gltsym 'SYM: +ST1 +SD1 -ST2 -ST3 -SD2 -SD3'
-glt_label 11 Srep
-gltsym 'SYM: +NT1 +ND1 -NT2 -NT3 -ND2 -ND3'
-glt_label 12 Nrep
-gltsym 'SYM: +NT1 +ND1 +ST1 +SD1 -NT2 -NT3 -ND2 -ND3 -ST2 -ST3 -SD2 -SD3'
-glt_label 13 Rep
-gltsym 'SYM: +NT1 +NT2 +NT3 +ST1 +ST2 +ST3 -ND1 -ND2 -ND3 -SD1 -SD2 -SD3'
-glt_label 14 TvD
-gltsym 'SYM: +ST1 +ST2 +ST3 +SD1 +SD2 +SD3 -NT1 -NT2 -NT3 -ND1 -ND2 -ND3'
-glt_label 15 SvN
-gltsym 'SYM: +SAM -NT1 -NT2 -NT3 -ND1 -ND2 -ND3 -ST1 -ST2 -ST3 -SD1 -SD2 -SD3'
-glt_label 16 SAMvAll
-regress_est_blur_epits -regress_est_blur_errts
Subject Author Posted

trouble with afniproc and SkullStrip

Sarah April 23, 2013 03:27PM

Re: trouble with afniproc and SkullStrip

Peter Molfese April 23, 2013 03:34PM

Re: trouble with afniproc and SkullStrip

Sarah April 23, 2013 03:36PM

Re: trouble with afniproc and SkullStrip

Peter Molfese April 23, 2013 03:40PM

Re: trouble with afniproc and SkullStrip

Sarah April 23, 2013 03:41PM

Re: trouble with afniproc and SkullStrip

Peter Molfese April 23, 2013 03:52PM

Re: trouble with afniproc and SkullStrip

Sarah April 24, 2013 11:09AM

Re: trouble with afniproc and SkullStrip

Peter Molfese April 24, 2013 11:32AM

Re: trouble with afniproc and SkullStrip

Sarah April 24, 2013 11:38AM

Re: trouble with afniproc and SkullStrip

Peter Molfese April 24, 2013 11:52AM

Re: trouble with afniproc and SkullStrip

Sarah April 24, 2013 11:55AM

Re: trouble with afniproc and SkullStrip

Sarah April 24, 2013 12:01PM

Re: trouble with afniproc and SkullStrip

rick reynolds April 24, 2013 12:56PM

Re: trouble with afniproc and SkullStrip

Sarah April 24, 2013 01:06PM

Re: trouble with afniproc and SkullStrip

agrant May 23, 2013 12:12PM

Re: trouble with afniproc and SkullStrip

Danny August 30, 2013 03:22PM

Re: trouble with afniproc and SkullStrip

rick reynolds August 30, 2013 04:03PM

Re: trouble with afniproc and SkullStrip

Danny August 30, 2013 04:14PM

Re: trouble with afniproc and SkullStrip

jgowin December 17, 2013 11:40AM

Re: trouble with afniproc and SkullStrip

Daniel Glen December 17, 2013 12:10PM

Re: trouble with afniproc and SkullStrip

ziad December 17, 2013 02:48PM

Re: trouble with afniproc and SkullStrip

jgowin December 18, 2013 11:06AM

Re: trouble with afniproc and SkullStrip

shanaadise November 30, 2015 01:29PM

Re: trouble with afniproc and SkullStrip

shanaadise November 30, 2015 02:26PM

Re: trouble with afniproc and SkullStrip

rick reynolds November 30, 2015 09:10PM