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
August 29, 2018 02:21PM
Hi, Tamara-

I think I have run into that error due to the ordering of the blocks when using -volreg_tlrc_warp. What is your full afni_proc.py command?

Here is just the @SSwarper and the alignment parts of an afni_proc.py script I had run-- note the order of "align tlrc volreg" blocks with the present flags. 
\mkdir -p $owarp

@SSwarper                   \
    -input  $anat           \
    -base   $templ          \
    -subid  $subj           \
    -odir   $owarp

# run afni_proc
afni_proc.py -subj_id TEST$subj                                  \
        -script test_b0.$subj -scr_overwrite                     \
        -blocks  align tlrc volreg                               \
        -copy_anat   $owarp/anatSS.${subj}.nii                   \
        -dsets       $inb0                                       \
        -anat_has_skull no                                       \
        -volreg_align_to first                                   \
        -volreg_align_e2a -volreg_tlrc_warp                      \
        -tlrc_base $templ                                        \
        -tlrc_NL_warp                                            \
        -tlrc_NL_warped_dsets                                    \
             $owarp/anatQQ.${subj}.nii                           \
             $owarp/anatQQ.${subj}.aff12.1D                      \
             $owarp/anatQQ.${subj}_WARP.nii                      \
        -execute

Please check that with the ordering of your blocks.

--pt
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Subject Author Posted

Error in affine step

tamtam August 07, 2018 05:01PM

Re: Error in affine step

Peter Molfese August 07, 2018 05:17PM

Re: Error in affine step Attachments

tamtam August 08, 2018 08:31AM

Re: Error in affine step

rick reynolds August 09, 2018 09:20AM

Re: Error in affine step

tamtam August 29, 2018 02:06PM

Re: Error in affine step

ptaylor August 29, 2018 02:21PM

Re: Error in affine step

tamtam August 29, 2018 02:44PM

Re: Error in affine step

ptaylor August 29, 2018 03:02PM

Re: Error in affine step

tamtam August 29, 2018 03:56PM

Re: Error in affine step

ptaylor August 29, 2018 04:42PM

Re: Error in affine step

tamtam August 30, 2018 10:01AM

Re: Error in affine step

ptaylor August 30, 2018 10:50AM

Re: Error in affine step

tamtam August 31, 2018 08:26AM