afni.nimh.nih.gov

Hi Rick,
Attached image of the ve2a block. Looks like alignment failed there, too.

Did not include -giant_move, but align_unifize_epi local is included


Here's the command:
afni_proc.py \
-subj_id $name \
-copy_anat $name.T1+orig \
-anat_has_skull yes \
-dsets $name.apt1+orig $name.apt2+orig $name.apt3+orig $name.apt4+orig \
-blocks tshift align tlrc volreg blur mask scale regress \
-align_opts_aea -cost lpc+ZZ -check_flip -align_unifize_epi local \
-tlrc_base TT_N27+tlrc \
-tlrc_NL_warp \
-volreg_align_to MIN_OUTLIER \
-volreg_align_e2a \
-volreg_tlrc_warp \
-mask_epi_anat yes \
-blur_size 3.5 \
-blur_in_automask \
-regress_stim_times \
stim_times/$name.NeutAppDec_local.txt \
stim_times/$name.NeutAppInp_local.txt \
stim_times/$name.NeutAmbDec_local.txt \
stim_times/$name.NeutAmbInp_local.txt \
stim_times/$name.NeutAvoDec_local.txt \
stim_times/$name.NeutAvoInp_local.txt \
stim_times/$name.NeutMisDec_local.txt \
stim_times/$name.NeutMisInp_local.txt \
stim_times/$name.AlcAppDec_local.txt \
stim_times/$name.AlcAppInp_local.txt \
stim_times/$name.AlcAmbDec_local.txt \
stim_times/$name.AlcAmbInp_local.txt \
stim_times/$name.AlcAvoDec_local.txt \
stim_times/$name.AlcAvoInp_local.txt \
stim_times/$name.AlcMisDec_local.txt \
stim_times/$name.AlcMisInp_local.txt \
-regress_stim_labels \
NeutAppDec \
NeutAppInp \
NeutAmbDec \
NeutAmbInp \
NeutAvoDec \
NeutAvoInp \
NeutMisDec \
NeutMisInp \
AlcAppDec \
AlcAppInp \
AlcAmbDec \
AlcAmbInp \
AlcAvoDec \
AlcAvoInp \
AlcMisDec \
AlcMisInp \
-regress_stim_types AM1 \
-regress_basis 'dmBLOCK(1)' \
-regress_opts_3dD \
-allzero_OK \
-GOFORIT 11 \
-regress_local_times \
-regress_motion_per_run \
-regress_censor_extern ../rescue_apt_dummyCensor.1D \
-regress_censor_motion 0.3 \
-regress_censor_outliers 0.05 \
-regress_compute_fitts \
-regress_est_blur_epits \
-regress_est_blur_errts \
-radial_correlate_blocks tcat volreg \
-html_review_style pythonic \