Hello AFNI experts!
This is the error I am getting that crashes my script. (See script is below error message).
Warning:
Because of the error in older versions of TT_avg152 template, this script
requires that you use the flag -ok_notice to proceed.
Before proceeding, DO check the error message at:
[afni.nimh.nih.gov]
To produce results using the old version of the template,
use template MNI_avg152T1+tlrc .
if ( ! -f sub16.IRCPTSD.spgr_strip+tlrc.HEAD ) then
echo ** missing +tlrc warp dataset: sub16.IRCPTSD.spgr_strip+tlrc.HEAD
** missing +tlrc warp dataset: sub16.IRCPTSD.spgr_strip+tlrc.HEAD
exit
THIS IS A COPY OF THE SCRIPT I AM USING:
#!/bin/tcsh
# ptsd_faces_afni_proc.py.tcsh
#
#
# Created by Lauren Taubitz on 5/2/13.
# Copyright 2013 __LaurenTaubitz!__. All rights reserved.
#This script runs afni_proc.py for the IRC PTSD Study for the FACES conditions ONLY!
#Removes stack size allocation limits to prevent killing this script
#ulimit -s unlimited
#Sets the folder containing the subject data
setenv subfolder /media/larson_buffalo/MRI7/IRC_PTSD/Data
#Creates a variable called "study" and sets its value.
set study = IRCPTSD
#Opens the scripts directory
cd /media/larson_buffalo/MRI7/IRC_PTSD/Scripts
#Sets a variable called "subject" and opens the folder containing this subject's data
foreach subject (sub16)
#THIS IS THE ERROR MESSAGE THAT CRASHES THE SCRIPT AS OF 9/18/19 jh EMILY WILL EMAIL US HER WAY THAT WORKS
#afni_proc.py generates a script that does all single-subject processing through 3dDeconvolve
#FIX SOME OPTIONS- CHECK THE MODEL FOR DECONVOLVE
#Warning:
#Because of the error in older versions of TT_avg152 template, this script
#requires that you use the flag -ok_notice to proceed.
#Before proceeding, DO check the error message at:
#[afni.nimh.nih.gov]
#To produce results using the old version of the template,
#use template MNI_avg152T1+tlrc .
#if ( ! -f sub16.IRCPTSD.spgr_strip+tlrc.HEAD ) then
#echo ** missing +tlrc warp dataset: sub16.IRCPTSD.spgr_strip+tlrc.HEAD
#** missing +tlrc warp dataset: sub16.IRCPTSD.spgr_strip+tlrc.HEAD
afni_proc.py \
-subj_id ${subject} \
-script proc_${subject}.faces \
-out_dir ${subfolder}/${subject}/${subject}.faces.results \
-dsets ${subfolder}/${subject}/${subject}.${study}.faces1+orig.HEAD \
${subfolder}/${subject}/${subject}.${study}.faces2+orig.HEAD \
-do_block align tlrc \
-copy_anat ${subfolder}/${subject}/${subject}.${study}.spgr+orig \
-tcat_remove_first_trs 3 \
-volreg_align_to third \
-volreg_align_e2a \
-volreg_tlrc_warp \
-tlrc_base ${subfolder}/MNI_avg152T1+tlrc \
-ok_notice \
-blur_size 6 \
-regress_stim_times faces_stim_times.01.happy.1D faces_stim_times.02.neutral.1D faces_stim_times.03.fear.1D \
-regress_stim_labels faces_happy faces_neut faces_fear \
-regress_basis 'BLOCK(10,1)' \
-regress_censor_motion 0.3 \
-regress_censor_outliers 0.1 \
-regress_opts_3dD \
-gltsym 'SYM: +faces_happy -faces_neut' -glt_label 1 happy_vs_neut \
-gltsym 'SYM: +faces_fear -faces_neut' -glt_label 2 fear_vs_neut \
-gltsym 'SYM: +faces_happy -faces_fear' -glt_label 3 happy_vs_fear \
-jobs 10 \
-regress_est_blur_epits \
-regress_est_blur_errts
#This runs the script generated by afni_proc.py
tcsh -xef proc_${subject}.faces |& tee output.proc_${subject}.faces
#Ends the foreach subject loop
end
Thanks for your time :)
~Jessica Hanson
