afni_ci_test_data/AFNI_data6/FT_analysis/s03.ap.surface

#!/bin/tcsh

# analyzing data on the surface
# - the -blocks option is the default for surface analysis, but is provided
#   for clarity, including the 'surf' block after volreg
# - adding -surf_anat and -surf_spec turns this into a surface analysis command

afni_proc.py -subj_id FT.surf                                    \
        -blocks tshift align volreg surf blur scale regress      \
        -copy_anat FT/FT_anat+orig                               \
        -dsets FT/FT_epi_r?+orig.HEAD                            \
        -surf_anat FT/SUMA/FT_SurfVol.nii                        \
        -surf_spec FT/SUMA/std.60.FT_?h.spec                     \
        -tcat_remove_first_trs 2                                 \
        -volreg_align_to MIN_OUTLIER                             \
        -volreg_align_e2a                                        \
        -blur_size 6                                             \
        -regress_stim_times FT/AV1_vis.txt FT/AV2_aud.txt        \
        -regress_stim_labels vis aud                             \
        -regress_basis 'BLOCK(20,1)'                             \
        -regress_motion_per_run                                  \
        -regress_censor_motion 0.3                               \
        -regress_opts_3dD                                        \
            -jobs 2                                              \
            -gltsym 'SYM: vis -aud' -glt_label 1 V-A