#!/usr/bin/env tcsh

# This compares the current s05.ap.uber with example 6b 
# from "afni_proc.py -help".  Consider:
# 
#       afni_proc.py -show_example 'example 6b'
#
# See -compare_opts, below.
#
# Consider adding -verb 2 for a more detailed comparison.


# created by uber_subject.py: version 0.41 (October 6, 2017)
# creation date: Tue Oct 10 09:47:13 2017
# - generated by s04.cmd.usubj, with -execute added,
# - modified for check_flip and radial_correlate

# set subject and group identifiers
set subj  = FT
set gname = horses

# set data directory
set top_dir = ${subj}

# run afni_proc.py to create a single subject processing script
afni_proc.py                                                                 \
    -subj_id                  $subj                                          \
    -blocks                   tshift align tlrc volreg blur mask scale       \
                              regress                                        \
    -radial_correlate_blocks  tcat volreg                                    \
    -copy_anat                $top_dir/${subj}_anat+orig                     \
    -dsets                    $top_dir/${subj}_epi_r1+orig.HEAD              \
                              $top_dir/${subj}_epi_r2+orig.HEAD              \
                              $top_dir/${subj}_epi_r3+orig.HEAD              \
    -tcat_remove_first_trs    2                                              \
    -align_opts_aea           -cost lpc+ZZ                                   \
                              -giant_move                                    \
                              -check_flip                                    \
    -volreg_align_to          MIN_OUTLIER                                    \
    -volreg_align_e2a                                                        \
    -volreg_tlrc_warp                                                        \
    -blur_size                4.0                                            \
    -mask_epi_anat            yes                                            \
    -regress_stim_times       $top_dir/AV1_vis.txt $top_dir/AV2_aud.txt      \
    -regress_stim_labels      vis aud                                        \
    -regress_basis            'BLOCK(20,1)'                                  \
    -regress_censor_motion    0.3                                            \
    -regress_censor_outliers  0.05                                           \
    -regress_motion_per_run                                                  \
    -regress_opts_3dD         -jobs 2                                        \
                              -gltsym 'SYM: vis -aud'                        \
                              -glt_label 1 V-A                               \
                              -gltsym 'SYM: 0.5*vis +0.5*aud'                \
                              -glt_label 2 mean.VA                           \
    -regress_compute_fitts                                                   \
    -regress_make_ideal_sum   sum_ideal.1D                                   \
    -regress_est_blur_epits                                                  \
    -regress_est_blur_errts                                                  \
    -regress_run_clustsim     no                                             \
    -html_review_style        basic                                          \
    -execute
               \
               \
    -compare_opts  'example 6b'