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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MundayNB
January 23, 2019 12:07PM
Hello,

I would like to align my epi image to tlrc space. I first ran the following command to align the T1 to the atlas TT_N27:

@auto_tlrc -base TT_N27+tlrc -input subj_T1+orig

This produced a subjc_T1+tlrc BRIK and HEAD file. I then ran the following command:

align_epi_anat.py \
-anat subj_T1+orig \
-epi subj_epi+org \
-epi_base 63 \
-epi2anat \
-tlrc_apar subj_T1+tlrc \
-tshift off \
-save_vr \

I get an error that it can't open the dataset subj_T1_tlrc_al+tlrc+tlrc
I don't understand why it's looking for a file name with that many suffixes? What am I doing wrong in setting up the command?

Thanks so much for your help!!
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Subject Author Posted

Difficulty with align_epi_anat

MundayNB January 23, 2019 12:07PM

Re: Difficulty with align_epi_anat

Daniel Glen January 25, 2019 01:16AM

Re: Difficulty with align_epi_anat

MundayNB January 27, 2019 01:47PM

Re: Difficulty with align_epi_anat

ptaylor January 28, 2019 08:56AM