niwrap-afni 0.6.3__py3-none-any.whl → 0.7.0__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- niwrap_afni/afni/__init__.py +601 -18
- niwrap_afni/afni/abids_json_info_py.py +35 -51
- niwrap_afni/afni/abids_json_tool_py.py +48 -59
- niwrap_afni/afni/{abids_tool.py → abids_tool_py.py} +60 -78
- niwrap_afni/afni/adjunct_apqc_tsnr_general.py +83 -84
- niwrap_afni/afni/adjunct_aw_tableize_roi_info_py.py +31 -50
- niwrap_afni/afni/adjunct_calc_mont_dims_py.py +20 -43
- niwrap_afni/afni/adjunct_combine_str_py.py +29 -51
- niwrap_afni/afni/adjunct_is_label_py.py +22 -44
- niwrap_afni/afni/adjunct_make_script_and_rst_py.py +35 -55
- niwrap_afni/afni/adjunct_select_str_py.py +24 -45
- niwrap_afni/afni/{adjunct_simplify_cost.py → adjunct_simplify_cost_py.py} +49 -70
- niwrap_afni/afni/adjunct_suma_fs_mask_and_qc.py +36 -55
- niwrap_afni/afni/adjunct_suma_fs_roi_info.py +28 -48
- niwrap_afni/afni/adjunct_tort_plot_dp_align.py +38 -58
- niwrap_afni/afni/adwarp.py +43 -59
- niwrap_afni/afni/afni.py +77 -77
- niwrap_afni/afni/afni_batch_r.py +28 -47
- niwrap_afni/afni/afni_check_omp.py +21 -44
- niwrap_afni/afni/afni_history.py +72 -75
- niwrap_afni/afni/afni_open.py +49 -58
- niwrap_afni/afni/afni_proc_py.py +50 -64
- niwrap_afni/afni/afni_run_r.py +22 -44
- niwrap_afni/afni/afni_system_check_py.py +43 -57
- niwrap_afni/afni/aiv.py +33 -51
- niwrap_afni/afni/{align_epi_anat.py → align_epi_anat_py.py} +84 -92
- niwrap_afni/afni/analyze_trace.py +48 -61
- niwrap_afni/afni/{ap_run_simple_rest.py → ap_run_simple_rest_tcsh.py} +72 -90
- niwrap_afni/afni/{apqc_make_html.py → apqc_make_html_py.py} +45 -68
- niwrap_afni/afni/apqc_make_tcsh_py.py +34 -53
- niwrap_afni/afni/apsearch.py +26 -48
- niwrap_afni/afni/auto_warp_py.py +98 -89
- niwrap_afni/afni/balloon.py +33 -51
- niwrap_afni/afni/bayes_view.py +29 -50
- niwrap_afni/afni/bayesian_group_ana_py.py +57 -68
- niwrap_afni/afni/brain_skin.py +64 -76
- niwrap_afni/afni/build_afni_py.py +62 -71
- niwrap_afni/afni/cat_matvec.py +26 -46
- niwrap_afni/afni/ccalc.py +23 -45
- niwrap_afni/afni/cifti_tool.py +42 -58
- niwrap_afni/afni/cjpeg.py +34 -52
- niwrap_afni/afni/clust_exp_hist_table_py.py +33 -54
- niwrap_afni/afni/clust_exp_stat_parse_py.py +57 -69
- niwrap_afni/afni/column_cat.py +32 -54
- niwrap_afni/afni/compare_surfaces.py +58 -68
- niwrap_afni/afni/{convert_cdiflist_to_grads.py → convert_cdiflist_to_grads_py.py} +60 -78
- niwrap_afni/afni/convert_dset.py +73 -77
- niwrap_afni/afni/convert_surface.py +47 -62
- niwrap_afni/afni/convex_hull.py +68 -77
- niwrap_afni/afni/count.py +56 -66
- niwrap_afni/afni/create_icosahedron.py +44 -58
- niwrap_afni/afni/dcm2niix_afni.py +102 -98
- niwrap_afni/afni/dicom_hdr.py +39 -53
- niwrap_afni/afni/dicom_hinfo.py +31 -49
- niwrap_afni/afni/dicom_to_raw.py +21 -45
- niwrap_afni/afni/dimon.py +45 -64
- niwrap_afni/afni/djpeg.py +34 -52
- niwrap_afni/afni/drive_suma.py +99 -92
- niwrap_afni/afni/dsetstat2p.py +30 -49
- niwrap_afni/afni/dtistudio_fiberto_segments.py +26 -48
- niwrap_afni/afni/{epi_b0_correct.py → epi_b0_correct_py.py} +110 -111
- niwrap_afni/afni/examine_xmat.py +45 -62
- niwrap_afni/afni/fat_mat2d_plot_py.py +88 -86
- niwrap_afni/afni/fat_mat_sel_py.py +87 -89
- niwrap_afni/afni/{fat_mat_tableize.py → fat_mat_tableize_py.py} +72 -87
- niwrap_afni/afni/fat_mvm_gridconv_py.py +24 -51
- niwrap_afni/afni/{fat_mvm_prep.py → fat_mvm_prep_py.py} +61 -79
- niwrap_afni/afni/fat_mvm_scripter_py.py +53 -65
- niwrap_afni/afni/fat_proc_align_anat_pair.py +50 -63
- niwrap_afni/afni/fat_proc_axialize_anat.py +76 -79
- niwrap_afni/afni/fat_proc_connec_vis.py +56 -70
- niwrap_afni/afni/fat_proc_convert_dcm_anat.py +44 -59
- niwrap_afni/afni/fat_proc_convert_dcm_dwis.py +74 -79
- niwrap_afni/afni/fat_proc_decmap.py +51 -65
- niwrap_afni/afni/fat_proc_dwi_to_dt.py +94 -93
- niwrap_afni/afni/fat_proc_filter_dwis.py +47 -61
- niwrap_afni/afni/fat_proc_imit2w_from_t1w.py +41 -62
- niwrap_afni/afni/fat_proc_map_to_dti.py +53 -65
- niwrap_afni/afni/fat_proc_select_vols.py +38 -55
- niwrap_afni/afni/{fat_roi_row.py → fat_roi_row_py.py} +58 -79
- niwrap_afni/afni/fatcat_matplot.py +22 -44
- niwrap_afni/afni/fdrval.py +34 -51
- niwrap_afni/afni/fftest.py +26 -46
- niwrap_afni/afni/file_tool.py +111 -94
- niwrap_afni/afni/fim2.py +85 -87
- niwrap_afni/afni/{find_variance_lines.py → find_variance_lines_tcsh.py} +90 -109
- niwrap_afni/afni/firdesign.py +33 -51
- niwrap_afni/afni/float_scan.py +27 -48
- niwrap_afni/afni/from3d.py +42 -60
- niwrap_afni/afni/fsread_annot.py +52 -66
- niwrap_afni/afni/gen_epi_review_py.py +47 -61
- niwrap_afni/afni/{gen_group_command.py → gen_group_command_py.py} +82 -95
- niwrap_afni/afni/{gen_ss_review_scripts.py → gen_ss_review_scripts_py.py} +100 -106
- niwrap_afni/afni/gen_ss_review_table_py.py +55 -66
- niwrap_afni/afni/get_afni_model_prf.py +26 -46
- niwrap_afni/afni/get_afni_model_prf_6.py +32 -49
- niwrap_afni/afni/get_afni_model_prf_6_bad.py +30 -48
- niwrap_afni/afni/gifti_tool.py +77 -80
- niwrap_afni/afni/gltsymtest.py +28 -49
- niwrap_afni/afni/help_format.py +20 -44
- niwrap_afni/afni/im2niml.py +24 -48
- niwrap_afni/afni/images_equal.py +24 -46
- niwrap_afni/afni/imand.py +30 -52
- niwrap_afni/afni/imaver.py +32 -54
- niwrap_afni/afni/imcalc.py +30 -51
- niwrap_afni/afni/imcat.py +89 -87
- niwrap_afni/afni/imcutup.py +35 -55
- niwrap_afni/afni/imdump.py +20 -44
- niwrap_afni/afni/immask.py +35 -53
- niwrap_afni/afni/imreg.py +70 -75
- niwrap_afni/afni/imrotate.py +33 -51
- niwrap_afni/afni/imstack.py +28 -50
- niwrap_afni/afni/imstat.py +29 -50
- niwrap_afni/afni/imupsam.py +27 -48
- niwrap_afni/afni/init_user_dotfiles_py.py +59 -66
- niwrap_afni/afni/inspec.py +37 -54
- niwrap_afni/afni/iso_surface.py +56 -67
- niwrap_afni/afni/make_color_map.py +77 -82
- niwrap_afni/afni/make_pq_script_py.py +27 -48
- niwrap_afni/afni/make_random_timing_py.py +85 -88
- niwrap_afni/afni/make_stim_times_py.py +49 -62
- niwrap_afni/afni/map_icosahedron.py +51 -62
- niwrap_afni/afni/map_track_id.py +35 -52
- niwrap_afni/afni/mba.py +62 -72
- niwrap_afni/afni/meica_py.py +38 -55
- niwrap_afni/afni/myget.py +26 -48
- niwrap_afni/afni/neuro_deconvolve_py.py +51 -66
- niwrap_afni/afni/nicat.py +27 -47
- niwrap_afni/afni/niccc.py +50 -63
- niwrap_afni/afni/nifti_tool.py +52 -65
- niwrap_afni/afni/niml_feedme.py +36 -53
- niwrap_afni/afni/nsize.py +23 -46
- niwrap_afni/afni/p2dsetstat.py +34 -51
- niwrap_afni/afni/parse_fs_lt_log_py.py +29 -48
- niwrap_afni/afni/plugout_drive.py +56 -65
- niwrap_afni/afni/plugout_ijk.py +46 -59
- niwrap_afni/afni/plugout_tt.py +48 -60
- niwrap_afni/afni/plugout_tta.py +49 -63
- niwrap_afni/afni/prompt_popup.py +35 -53
- niwrap_afni/afni/prompt_user.py +26 -47
- niwrap_afni/afni/pta.py +44 -61
- niwrap_afni/afni/qdelaunay.py +100 -91
- niwrap_afni/afni/qhull.py +63 -67
- niwrap_afni/afni/quick_alpha_vals_py.py +23 -46
- niwrap_afni/afni/quickspec.py +41 -59
- niwrap_afni/afni/quickspec_sl.py +46 -63
- niwrap_afni/afni/quotize.py +25 -47
- niwrap_afni/afni/r_pkgs_install.py +30 -50
- niwrap_afni/afni/rba.py +93 -92
- niwrap_afni/afni/rbox.py +68 -71
- niwrap_afni/afni/read_matlab_files_py.py +32 -51
- niwrap_afni/afni/{realtime_receiver.py → realtime_receiver_py.py} +76 -88
- niwrap_afni/afni/retro_ts_py.py +84 -84
- niwrap_afni/afni/rmz.py +27 -47
- niwrap_afni/afni/roi2dataset.py +47 -60
- niwrap_afni/afni/roigrow.py +38 -55
- niwrap_afni/afni/rotcom.py +27 -50
- niwrap_afni/afni/rsfgen.py +53 -65
- niwrap_afni/afni/rtfeedme.py +47 -60
- niwrap_afni/afni/samp_bias.py +42 -60
- niwrap_afni/afni/scale_to_map.py +98 -90
- niwrap_afni/afni/serial_helper.py +48 -60
- niwrap_afni/afni/sfim.py +31 -54
- niwrap_afni/afni/slow_surf_clustsim_py.py +44 -57
- niwrap_afni/afni/spharm_deco.py +47 -68
- niwrap_afni/afni/spharm_reco.py +38 -54
- niwrap_afni/afni/stimband.py +34 -53
- niwrap_afni/afni/strblast.py +38 -55
- niwrap_afni/afni/suma_change_spec.py +34 -53
- niwrap_afni/afni/suma_glxdino.py +24 -47
- niwrap_afni/afni/surf2_vol_coord.py +46 -60
- niwrap_afni/afni/surf_clust.py +113 -99
- niwrap_afni/afni/surf_dist.py +37 -54
- niwrap_afni/afni/surf_dset_info.py +59 -64
- niwrap_afni/afni/surf_extrema.py +43 -60
- niwrap_afni/afni/surf_fwhm.py +59 -70
- niwrap_afni/afni/surf_info.py +67 -72
- niwrap_afni/afni/surf_layers.py +49 -70
- niwrap_afni/afni/surf_localstat.py +33 -52
- niwrap_afni/afni/surf_measures.py +64 -71
- niwrap_afni/afni/surf_mesh.py +37 -54
- niwrap_afni/afni/surf_patch.py +68 -72
- niwrap_afni/afni/surf_qual.py +38 -57
- niwrap_afni/afni/surf_retino_map.py +32 -52
- niwrap_afni/afni/surf_smooth.py +63 -72
- niwrap_afni/afni/surf_to_surf.py +55 -67
- niwrap_afni/afni/surface_metrics.py +68 -69
- niwrap_afni/afni/tedana_wrapper_py.py +51 -63
- niwrap_afni/afni/tfim.py +39 -57
- niwrap_afni/afni/timing_tool_py.py +72 -78
- niwrap_afni/afni/to3d.py +125 -110
- niwrap_afni/afni/tokens.py +24 -46
- niwrap_afni/afni/trr.py +70 -77
- niwrap_afni/afni/uber_align_test_py.py +41 -55
- niwrap_afni/afni/uber_proc_py.py +21 -44
- niwrap_afni/afni/{uber_skel.py → uber_skel_py.py} +72 -85
- niwrap_afni/afni/uber_subject_py.py +143 -124
- niwrap_afni/afni/un_warp_epi_py.py +34 -50
- niwrap_afni/afni/uniq_images.py +26 -50
- niwrap_afni/afni/v_1d_apar2mat.py +42 -54
- niwrap_afni/afni/v_1d_astrip.py +20 -44
- niwrap_afni/afni/v_1d_bandpass.py +34 -51
- niwrap_afni/afni/v_1d_bport.py +47 -60
- niwrap_afni/afni/v_1d_correlate.py +42 -57
- niwrap_afni/afni/v_1d_dw_grad_o_mat__.py +72 -76
- niwrap_afni/afni/v_1d_flag_motion.py +30 -52
- niwrap_afni/afni/v_1d_marry.py +25 -47
- niwrap_afni/afni/v_1d_nlfit.py +29 -49
- niwrap_afni/afni/v_1d_rplot.py +72 -78
- niwrap_afni/afni/v_1d_sem.py +60 -69
- niwrap_afni/afni/v_1d_tool_py.py +53 -65
- niwrap_afni/afni/v_1d_tsort.py +31 -49
- niwrap_afni/afni/v_1d_upsample.py +24 -46
- niwrap_afni/afni/v_1dcat.py +38 -54
- niwrap_afni/afni/v_1ddot.py +34 -51
- niwrap_afni/afni/v_1deval.py +44 -61
- niwrap_afni/afni/v_1dfft.py +40 -56
- niwrap_afni/afni/v_1dgen_arma11.py +57 -70
- niwrap_afni/afni/v_1dgrayplot.py +38 -53
- niwrap_afni/afni/v_1dmatcalc.py +25 -49
- niwrap_afni/afni/v_1dnorm.py +31 -50
- niwrap_afni/afni/v_1dplot.py +191 -155
- niwrap_afni/afni/v_1dplot_py.py +110 -103
- niwrap_afni/afni/v_1dsound.py +44 -58
- niwrap_afni/afni/v_1dsum.py +36 -53
- niwrap_afni/afni/v_1dsvd.py +45 -59
- niwrap_afni/afni/v_1dtranspose.py +24 -47
- niwrap_afni/afni/v_24swap.py +25 -46
- niwrap_afni/afni/v_2d_im_reg.py +55 -68
- niwrap_afni/afni/v_2dcat.py +86 -86
- niwrap_afni/afni/v_2perm.py +35 -54
- niwrap_afni/afni/v_2swap.py +22 -44
- niwrap_afni/afni/v_3d_aboverlap.py +32 -51
- niwrap_afni/afni/v_3d_acost.py +28 -49
- niwrap_afni/afni/v_3d_afnito3_d.py +28 -49
- niwrap_afni/afni/v_3d_afnito_analyze.py +31 -52
- niwrap_afni/afni/v_3d_afnito_nifti.py +36 -53
- niwrap_afni/afni/v_3d_afnito_niml.py +27 -47
- niwrap_afni/afni/v_3d_afnito_raw.py +25 -46
- niwrap_afni/afni/v_3d_allineate.py +63 -74
- niwrap_afni/afni/v_3d_amp_to_rsfc.py +39 -58
- niwrap_afni/afni/v_3d_anhist.py +41 -56
- niwrap_afni/afni/v_3d_anova.py +64 -75
- niwrap_afni/afni/v_3d_anova2.py +101 -100
- niwrap_afni/afni/v_3d_anova3.py +138 -126
- niwrap_afni/afni/v_3d_attribute.py +40 -55
- niwrap_afni/afni/v_3d_auto_tcorrelate.py +52 -64
- niwrap_afni/afni/v_3d_autobox.py +56 -66
- niwrap_afni/afni/v_3d_automask.py +40 -58
- niwrap_afni/afni/v_3d_ball_match.py +38 -56
- niwrap_afni/afni/v_3d_bandpass.py +66 -74
- niwrap_afni/afni/v_3d_blur_in_mask.py +45 -59
- niwrap_afni/afni/v_3d_blur_to_fwhm.py +41 -58
- niwrap_afni/afni/v_3d_brain_sync.py +40 -58
- niwrap_afni/afni/v_3d_brain_voyagerto_afni.py +52 -63
- niwrap_afni/afni/v_3d_brick_stat.py +83 -78
- niwrap_afni/afni/v_3d_clip_level.py +32 -52
- niwrap_afni/afni/v_3d_clust_count.py +30 -51
- niwrap_afni/afni/v_3d_clust_sim.py +85 -88
- niwrap_afni/afni/v_3d_clusterize.py +81 -82
- niwrap_afni/afni/v_3d_cm.py +43 -59
- niwrap_afni/afni/v_3d_compare_affine.py +31 -53
- niwrap_afni/afni/v_3d_conformist.py +24 -46
- niwrap_afni/afni/v_3d_convolve.py +26 -48
- niwrap_afni/afni/v_3d_cruiseto_afni.py +48 -60
- niwrap_afni/afni/v_3d_deconvolve.py +68 -78
- niwrap_afni/afni/v_3d_degree_centrality.py +49 -66
- niwrap_afni/afni/v_3d_depth_map.py +53 -65
- niwrap_afni/afni/v_3d_despike.py +28 -51
- niwrap_afni/afni/v_3d_detrend.py +24 -47
- niwrap_afni/afni/v_3d_dft.py +40 -58
- niwrap_afni/afni/v_3d_diff.py +37 -54
- niwrap_afni/afni/v_3d_dteig.py +35 -55
- niwrap_afni/afni/v_3d_dtto_dwi.py +37 -54
- niwrap_afni/afni/v_3d_dtto_noisy_dwi.py +45 -60
- niwrap_afni/afni/v_3d_dwito_dt.py +84 -86
- niwrap_afni/afni/v_3d_dwuncert.py +43 -59
- niwrap_afni/afni/v_3d_ecm.py +65 -73
- niwrap_afni/afni/v_3d_edu_01_scale.py +28 -53
- niwrap_afni/afni/v_3d_eigs_to_dt.py +38 -55
- niwrap_afni/afni/v_3d_empty.py +31 -52
- niwrap_afni/afni/v_3d_entropy.py +22 -44
- niwrap_afni/afni/v_3d_errts_cormat.py +39 -58
- niwrap_afni/afni/v_3d_exchange.py +30 -50
- niwrap_afni/afni/v_3d_extract_group_in_corr.py +28 -51
- niwrap_afni/afni/v_3d_extrema.py +67 -72
- niwrap_afni/afni/v_3d_fdr.py +54 -65
- niwrap_afni/afni/v_3d_fft.py +52 -65
- niwrap_afni/afni/v_3d_friedman.py +30 -53
- niwrap_afni/afni/v_3d_fwhmx.py +51 -63
- niwrap_afni/afni/v_3d_gen_feature_dist.py +50 -63
- niwrap_afni/afni/v_3d_gen_priors.py +87 -86
- niwrap_afni/afni/v_3d_getrow.py +34 -54
- niwrap_afni/afni/v_3d_grayplot.py +58 -69
- niwrap_afni/afni/v_3d_group_in_corr.py +87 -84
- niwrap_afni/afni/v_3d_hist.py +74 -78
- niwrap_afni/afni/v_3d_icc.py +55 -66
- niwrap_afni/afni/v_3d_intracranial.py +41 -57
- niwrap_afni/afni/v_3d_inv_fmri.py +48 -62
- niwrap_afni/afni/v_3d_isc.py +43 -59
- niwrap_afni/afni/v_3d_kruskal_wallis.py +31 -51
- niwrap_afni/afni/v_3d_lfcd.py +47 -63
- niwrap_afni/afni/v_3d_lme.py +97 -92
- niwrap_afni/afni/v_3d_lmer.py +77 -80
- niwrap_afni/afni/v_3d_local_acf.py +35 -55
- niwrap_afni/afni/v_3d_local_bistat.py +50 -63
- niwrap_afni/afni/v_3d_local_histog.py +46 -61
- niwrap_afni/afni/v_3d_local_pv.py +50 -64
- niwrap_afni/afni/v_3d_local_svd.py +38 -54
- niwrap_afni/afni/v_3d_local_unifize.py +46 -62
- niwrap_afni/afni/v_3d_localstat.py +76 -81
- niwrap_afni/afni/v_3d_lomb_scargle.py +42 -59
- niwrap_afni/afni/v_3d_lrflip.py +35 -55
- niwrap_afni/afni/v_3d_lss.py +39 -56
- niwrap_afni/afni/v_3d_mann_whitney.py +30 -54
- niwrap_afni/afni/v_3d_mask_to_ascii.py +25 -47
- niwrap_afni/afni/v_3d_match.py +49 -65
- niwrap_afni/afni/v_3d_mean.py +64 -70
- niwrap_afni/afni/v_3d_median_filter.py +39 -58
- niwrap_afni/afni/v_3d_mema.py +89 -87
- niwrap_afni/afni/v_3d_mepfm.py +43 -63
- niwrap_afni/afni/v_3d_mse.py +44 -60
- niwrap_afni/afni/v_3d_mss.py +66 -73
- niwrap_afni/afni/v_3d_multi_thresh.py +47 -61
- niwrap_afni/afni/v_3d_mvm.py +62 -72
- niwrap_afni/afni/v_3d_mvm_validator.py +23 -49
- niwrap_afni/afni/v_3d_net_corr.py +67 -72
- niwrap_afni/afni/v_3d_nlfim.py +134 -122
- niwrap_afni/afni/v_3d_normality_test.py +27 -48
- niwrap_afni/afni/v_3d_notes.py +36 -53
- niwrap_afni/afni/v_3d_nwarp_adjust.py +34 -56
- niwrap_afni/afni/v_3d_nwarp_apply.py +59 -73
- niwrap_afni/afni/v_3d_nwarp_cat.py +42 -58
- niwrap_afni/afni/v_3d_nwarp_funcs.py +35 -54
- niwrap_afni/afni/v_3d_nwarp_xyz.py +31 -52
- niwrap_afni/afni/v_3d_overlap.py +27 -49
- niwrap_afni/afni/{v_3d_par2_afni.py → v_3d_par2_afni_pl.py} +65 -80
- niwrap_afni/afni/v_3d_periodogram.py +35 -56
- niwrap_afni/afni/v_3d_pfm.py +62 -72
- niwrap_afni/afni/v_3d_polyfit.py +62 -73
- niwrap_afni/afni/v_3d_pval.py +32 -51
- niwrap_afni/afni/v_3d_pvmap.py +31 -52
- niwrap_afni/afni/v_3d_qwarp.py +64 -67
- niwrap_afni/afni/v_3d_rank.py +30 -51
- niwrap_afni/afni/v_3d_rankizer.py +37 -56
- niwrap_afni/afni/v_3d_re_ho.py +65 -76
- niwrap_afni/afni/v_3d_reg_ana.py +58 -68
- niwrap_afni/afni/v_3d_remlfit.py +64 -74
- niwrap_afni/afni/v_3d_retino_phase.py +71 -80
- niwrap_afni/afni/{v_3_droimaker.py → v_3d_roimaker.py} +100 -105
- niwrap_afni/afni/v_3d_roistats.py +52 -62
- niwrap_afni/afni/v_3d_row_fillin.py +33 -53
- niwrap_afni/afni/v_3d_rprog_demo.py +43 -57
- niwrap_afni/afni/v_3d_rsfc.py +78 -79
- niwrap_afni/afni/v_3d_seg.py +80 -86
- niwrap_afni/afni/v_3d_setup_group_in_corr.py +46 -60
- niwrap_afni/afni/v_3d_sharpen.py +30 -52
- niwrap_afni/afni/v_3d_signatures.py +33 -52
- niwrap_afni/afni/v_3d_skull_strip.py +27 -49
- niwrap_afni/afni/v_3d_slice_ndice.py +36 -54
- niwrap_afni/afni/v_3d_space_time_corr.py +36 -54
- niwrap_afni/afni/v_3d_spat_norm.py +40 -56
- niwrap_afni/afni/v_3d_stat_clust.py +44 -60
- niwrap_afni/afni/v_3d_surf2_vol.py +84 -87
- niwrap_afni/afni/v_3d_surf_mask.py +44 -60
- niwrap_afni/afni/v_3d_synthesize.py +34 -51
- niwrap_afni/afni/v_3d_tagalign.py +54 -64
- niwrap_afni/afni/v_3d_tcat.py +34 -53
- niwrap_afni/afni/v_3d_tcorr1_d.py +40 -57
- niwrap_afni/afni/v_3d_tcorr_map.py +66 -73
- niwrap_afni/afni/v_3d_tcorrelate.py +59 -68
- niwrap_afni/afni/v_3d_tfilter.py +29 -51
- niwrap_afni/afni/v_3d_tfitter.py +71 -78
- niwrap_afni/afni/v_3d_threeto_rgb.py +41 -58
- niwrap_afni/afni/v_3d_tnorm.py +37 -54
- niwrap_afni/afni/v_3d_tortoiseto_here.py +36 -55
- niwrap_afni/afni/v_3d_toutcount.py +44 -59
- niwrap_afni/afni/v_3d_toy_prog.py +54 -62
- niwrap_afni/afni/v_3d_tproject.py +77 -83
- niwrap_afni/afni/v_3d_tqual.py +36 -53
- niwrap_afni/afni/v_3d_track_id.py +139 -120
- niwrap_afni/afni/v_3d_trfix.py +33 -53
- niwrap_afni/afni/v_3d_tsgen.py +55 -66
- niwrap_afni/afni/v_3d_tshift.py +59 -71
- niwrap_afni/afni/v_3d_tsmooth.py +58 -69
- niwrap_afni/afni/v_3d_tsort.py +43 -57
- niwrap_afni/afni/v_3d_tsplit4_d.py +27 -51
- niwrap_afni/afni/v_3d_tstat.py +151 -115
- niwrap_afni/afni/v_3d_tto1_d.py +34 -53
- niwrap_afni/afni/v_3d_twoto_complex.py +35 -54
- niwrap_afni/afni/v_3d_undump.py +65 -72
- niwrap_afni/afni/v_3d_unifize.py +56 -67
- niwrap_afni/afni/v_3d_upsample.py +34 -53
- niwrap_afni/afni/v_3d_vec_rgb_to_hsl.py +33 -54
- niwrap_afni/afni/v_3d_vol2_surf.py +125 -108
- niwrap_afni/afni/v_3d_warp.py +71 -73
- niwrap_afni/afni/v_3d_warp_drive.py +108 -95
- niwrap_afni/afni/v_3d_wilcoxon.py +35 -53
- niwrap_afni/afni/v_3d_winsor.py +45 -61
- niwrap_afni/afni/v_3d_xclust_sim.py +64 -74
- niwrap_afni/afni/v_3d_xyzcat.py +30 -51
- niwrap_afni/afni/v_3d_zcat.py +36 -54
- niwrap_afni/afni/v_3d_zcutup.py +27 -49
- niwrap_afni/afni/v_3d_zeropad.py +62 -72
- niwrap_afni/afni/v_3d_zipper_zapper.py +63 -72
- niwrap_afni/afni/v_3d_zregrid.py +36 -55
- niwrap_afni/afni/v_3danisosmooth.py +72 -75
- niwrap_afni/afni/v_3daxialize.py +41 -56
- niwrap_afni/afni/v_3dbucket.py +43 -57
- niwrap_afni/afni/v_3dcalc.py +46 -61
- niwrap_afni/afni/v_3dclust.py +64 -69
- niwrap_afni/afni/v_3dcopy.py +32 -49
- niwrap_afni/afni/v_3ddelay.py +83 -84
- niwrap_afni/afni/v_3ddot.py +50 -60
- niwrap_afni/afni/v_3ddot_beta.py +28 -49
- niwrap_afni/afni/v_3dedge3.py +40 -56
- niwrap_afni/afni/v_3dedgedog.py +59 -72
- niwrap_afni/afni/v_3dfim_.py +60 -73
- niwrap_afni/afni/v_3dfractionize.py +36 -54
- niwrap_afni/afni/v_3dhistog.py +63 -70
- niwrap_afni/afni/v_3dinfill.py +48 -63
- niwrap_afni/afni/v_3dinfo.py +250 -161
- niwrap_afni/afni/v_3dkmeans.py +73 -79
- niwrap_afni/afni/v_3dmask_svd.py +46 -62
- niwrap_afni/afni/v_3dmask_tool.py +53 -65
- niwrap_afni/afni/v_3dmaskave.py +36 -56
- niwrap_afni/afni/v_3dmaskdump.py +73 -78
- niwrap_afni/afni/v_3dmatcalc.py +29 -50
- niwrap_afni/afni/v_3dmatmult.py +31 -51
- niwrap_afni/afni/v_3dmaxdisp.py +30 -50
- niwrap_afni/afni/v_3dmaxima.py +68 -70
- niwrap_afni/afni/v_3dmerge.py +48 -61
- niwrap_afni/afni/v_3dnewid.py +37 -53
- niwrap_afni/afni/v_3dnvals.py +24 -45
- niwrap_afni/afni/v_3dpc.py +58 -68
- niwrap_afni/afni/v_3drefit.py +65 -73
- niwrap_afni/afni/v_3drename.py +22 -44
- niwrap_afni/afni/v_3dresample.py +38 -56
- niwrap_afni/afni/v_3dretroicor.py +51 -67
- niwrap_afni/afni/v_3drotate.py +83 -83
- niwrap_afni/afni/v_3dsvm.py +90 -88
- niwrap_afni/afni/v_3dsvm_linpredict.py +25 -47
- niwrap_afni/afni/v_3dto_xdataset.py +25 -47
- niwrap_afni/afni/v_3dttest__.py +77 -81
- niwrap_afni/afni/v_3dvolreg.py +60 -70
- niwrap_afni/afni/v_4swap.py +22 -44
- niwrap_afni/afni/v__1d_diff_mag.py +20 -44
- niwrap_afni/afni/v__2dwarper.py +20 -44
- niwrap_afni/afni/v__2dwarper_allin.py +28 -50
- niwrap_afni/afni/v__4_daverage.py +22 -44
- niwrap_afni/afni/v__add_edge.py +59 -69
- niwrap_afni/afni/v__afni_env.py +42 -56
- niwrap_afni/afni/v__afni_orient2_raimap.py +20 -43
- niwrap_afni/afni/v__afni_orient_sign.py +21 -45
- niwrap_afni/afni/v__afni_r_package_install.py +34 -52
- niwrap_afni/afni/v__afni_refacer_make_master.py +20 -44
- niwrap_afni/afni/v__afni_refacer_make_onebig_a12.py +21 -45
- niwrap_afni/afni/v__afni_refacer_run.py +55 -67
- niwrap_afni/afni/v__afni_run_me.py +24 -45
- niwrap_afni/afni/v__align_centers.py +57 -68
- niwrap_afni/afni/v__align_partial_oblique.py +42 -58
- niwrap_afni/afni/v__anaticor.py +50 -61
- niwrap_afni/afni/v__animal_warper.py +113 -104
- niwrap_afni/afni/v__atlasize.py +67 -74
- niwrap_afni/afni/v__auto_tlrc.py +119 -105
- niwrap_afni/afni/v__build_afni_xlib.py +30 -48
- niwrap_afni/afni/v__center_distance.py +22 -45
- niwrap_afni/afni/v__chauffeur_afni.py +68 -75
- niwrap_afni/afni/v__check_for_afni_dset.py +21 -45
- niwrap_afni/afni/v__clip_volume.py +71 -78
- niwrap_afni/afni/v__clust_exp_cat_lab.py +25 -47
- niwrap_afni/afni/v__clust_exp_run_shiny.py +22 -44
- niwrap_afni/afni/v__command_globb.py +27 -51
- niwrap_afni/afni/v__compute_gcor.py +38 -56
- niwrap_afni/afni/v__compute_oc_weights.py +47 -62
- niwrap_afni/afni/v__deblank_file_names.py +35 -51
- niwrap_afni/afni/v__demo_prompt.py +20 -44
- niwrap_afni/afni/v__dice_metric.py +48 -59
- niwrap_afni/afni/v__diff_files.py +47 -58
- niwrap_afni/afni/v__diff_tree.py +61 -67
- niwrap_afni/afni/v__djunct_4d_imager.py +37 -58
- niwrap_afni/afni/v__djunct_4d_slices_to_3d_vol.py +20 -44
- niwrap_afni/afni/v__djunct_anonymize.py +28 -48
- niwrap_afni/afni/v__djunct_dwi_selector_tcsh.py +170 -0
- niwrap_afni/afni/v__djunct_edgy_align_check.py +88 -86
- niwrap_afni/afni/v__djunct_modal_smoothing_with_rep.py +43 -60
- niwrap_afni/afni/v__djunct_montage_coordinator.py +36 -54
- niwrap_afni/afni/v__djunct_overlap_check.py +80 -80
- niwrap_afni/afni/v__djunct_ssw_intermed_edge_imgs.py +54 -63
- niwrap_afni/afni/v__do_examples.py +20 -44
- niwrap_afni/afni/v__electro_grid.py +35 -54
- niwrap_afni/afni/v__examine_gen_feat_dists.py +42 -57
- niwrap_afni/afni/v__extract_meica_ortvec.py +36 -55
- niwrap_afni/afni/v__fast_roi.py +41 -56
- niwrap_afni/afni/v__fat_tract_colorize.py +37 -55
- niwrap_afni/afni/v__find_afni_dset_path.py +30 -48
- niwrap_afni/afni/v__fix_fssphere.py +32 -51
- niwrap_afni/afni/v__float_fix.py +24 -47
- niwrap_afni/afni/v__from_rai.py +22 -44
- niwrap_afni/afni/v__fs_roi_label.py +45 -60
- niwrap_afni/afni/v__fslabel2dset.py +33 -52
- niwrap_afni/afni/v__get_afni_dims.py +20 -44
- niwrap_afni/afni/v__get_afni_id.py +20 -44
- niwrap_afni/afni/v__get_afni_orient.py +23 -46
- niwrap_afni/afni/v__get_afni_prefix.py +23 -45
- niwrap_afni/afni/v__get_afni_res.py +23 -45
- niwrap_afni/afni/v__get_afni_version.py +21 -45
- niwrap_afni/afni/v__get_afni_view.py +20 -44
- niwrap_afni/afni/v__grad_flip_test.py +58 -69
- niwrap_afni/afni/v__grayplot.py +33 -53
- niwrap_afni/afni/v__help_afni.py +31 -49
- niwrap_afni/afni/v__is_oblique.py +20 -44
- niwrap_afni/afni/v__iso_masks.py +23 -45
- niwrap_afni/afni/v__make_label_table.py +116 -106
- niwrap_afni/afni/v__make_plug_diff.py +32 -49
- niwrap_afni/afni/v__measure_bb_thick.py +59 -72
- niwrap_afni/afni/v__measure_erosion_thick.py +45 -60
- niwrap_afni/afni/v__measure_in2out.py +50 -63
- niwrap_afni/afni/v__move_to_series_dirs.py +41 -57
- niwrap_afni/afni/v__no_ext.py +23 -46
- niwrap_afni/afni/v__no_pound.py +20 -43
- niwrap_afni/afni/v__noisy_skull_strip.py +29 -51
- niwrap_afni/afni/v__np.py +28 -50
- niwrap_afni/afni/v__parse_afni_name.py +24 -48
- niwrap_afni/afni/v__purify_1_d.py +26 -47
- niwrap_afni/afni/v__quiet_talkers.py +38 -54
- niwrap_afni/afni/v__radial_correlate.py +74 -79
- niwrap_afni/afni/v__rename_panga.py +43 -58
- niwrap_afni/afni/v__reorder.py +38 -56
- niwrap_afni/afni/v__retino_proc.py +130 -114
- niwrap_afni/afni/v__roi_corr_mat.py +42 -57
- niwrap_afni/afni/v__roi_decluster.py +40 -57
- niwrap_afni/afni/v__roi_modal_grow.py +39 -56
- niwrap_afni/afni/v__scale_volume.py +38 -55
- niwrap_afni/afni/v__script_check.py +25 -47
- niwrap_afni/afni/v__shift_volume.py +36 -55
- niwrap_afni/afni/v__show_dynamic_range.py +26 -50
- niwrap_afni/afni/v__simulate_motion.py +58 -67
- niwrap_afni/afni/v__skull_strip_touch_up.py +36 -55
- niwrap_afni/afni/v__snapshot_volreg.py +29 -50
- niwrap_afni/afni/v__spharm_examples.py +31 -49
- niwrap_afni/afni/v__sswarper.py +89 -89
- niwrap_afni/afni/v__statauxcode.py +20 -44
- niwrap_afni/afni/v__suma_acknowledge.py +40 -58
- niwrap_afni/afni/v__suma_align_to_experiment.py +75 -78
- niwrap_afni/afni/v__suma_fsvol_to_brik.py +24 -47
- niwrap_afni/afni/v__suma_make_spec_caret.py +35 -54
- niwrap_afni/afni/v__suma_make_spec_fs.py +60 -69
- niwrap_afni/afni/v__suma_make_spec_sf.py +28 -50
- niwrap_afni/afni/v__suma_renumber_fs.py +29 -53
- niwrap_afni/afni/v__suma_reprefixize_spec.py +28 -51
- niwrap_afni/afni/v__surf_smooth_heat_07_examples.py +20 -43
- niwrap_afni/afni/v__surf_to_vol_spackle.py +57 -68
- niwrap_afni/afni/v__t1scale.py +50 -61
- niwrap_afni/afni/v__thickness_master.py +28 -50
- niwrap_afni/afni/v__time_diff.py +22 -44
- niwrap_afni/afni/v__to_mni_awarp.py +22 -48
- niwrap_afni/afni/v__to_mni_qwarpar.py +23 -46
- niwrap_afni/afni/v__to_rai.py +22 -44
- niwrap_afni/afni/v__update_afni_binaries.py +73 -73
- niwrap_afni/afni/v__vol_center.py +23 -45
- niwrap_afni/afni/v__xyz_to_ijk.py +30 -50
- niwrap_afni/afni/vecwarp.py +41 -59
- niwrap_afni/afni/waver.py +80 -83
- niwrap_afni/afni/whirlgif.py +42 -60
- niwrap_afni/afni/xmat_tool_py.py +66 -70
- niwrap_afni-0.7.0.dist-info/METADATA +8 -0
- niwrap_afni-0.7.0.dist-info/RECORD +569 -0
- niwrap_afni-0.7.0.dist-info/WHEEL +4 -0
- niwrap_afni/afni/v__djunct_dwi_selector.py +0 -192
- niwrap_afni-0.6.3.dist-info/METADATA +0 -8
- niwrap_afni-0.6.3.dist-info/RECORD +0 -569
- niwrap_afni-0.6.3.dist-info/WHEEL +0 -4
niwrap_afni/afni/v_3d_tfitter.py
CHANGED
|
@@ -6,7 +6,7 @@ import pathlib
|
|
|
6
6
|
from styxdefs import *
|
|
7
7
|
|
|
8
8
|
V_3D_TFITTER_METADATA = Metadata(
|
|
9
|
-
id="
|
|
9
|
+
id="823720eb849f313e116601e7d8bf16a32c9a2615.boutiques",
|
|
10
10
|
name="3dTfitter",
|
|
11
11
|
package="afni",
|
|
12
12
|
container_image_tag="afni/afni_make_build:AFNI_24.2.06",
|
|
@@ -14,7 +14,28 @@ V_3D_TFITTER_METADATA = Metadata(
|
|
|
14
14
|
|
|
15
15
|
|
|
16
16
|
V3dTfitterParameters = typing.TypedDict('V3dTfitterParameters', {
|
|
17
|
-
"
|
|
17
|
+
"@type": typing.NotRequired[typing.Literal["afni/3dTfitter"]],
|
|
18
|
+
"RHS": str,
|
|
19
|
+
"LHS": typing.NotRequired[list[str] | None],
|
|
20
|
+
"polort": typing.NotRequired[float | None],
|
|
21
|
+
"vthr": typing.NotRequired[float | None],
|
|
22
|
+
"FALTUNG": typing.NotRequired[list[str] | None],
|
|
23
|
+
"lsqfit": bool,
|
|
24
|
+
"l1fit": bool,
|
|
25
|
+
"l2lasso": typing.NotRequired[list[str] | None],
|
|
26
|
+
"lasso_centro_block": typing.NotRequired[list[str] | None],
|
|
27
|
+
"l2sqrtlasso": typing.NotRequired[list[str] | None],
|
|
28
|
+
"consign": typing.NotRequired[list[str] | None],
|
|
29
|
+
"consFAL": typing.NotRequired[str | None],
|
|
30
|
+
"prefix": typing.NotRequired[str | None],
|
|
31
|
+
"label": typing.NotRequired[list[str] | None],
|
|
32
|
+
"fitts": typing.NotRequired[str | None],
|
|
33
|
+
"errsum": typing.NotRequired[str | None],
|
|
34
|
+
"mask": typing.NotRequired[str | None],
|
|
35
|
+
"quiet": bool,
|
|
36
|
+
})
|
|
37
|
+
V3dTfitterParametersTagged = typing.TypedDict('V3dTfitterParametersTagged', {
|
|
38
|
+
"@type": typing.Literal["afni/3dTfitter"],
|
|
18
39
|
"RHS": str,
|
|
19
40
|
"LHS": typing.NotRequired[list[str] | None],
|
|
20
41
|
"polort": typing.NotRequired[float | None],
|
|
@@ -34,43 +55,11 @@ V3dTfitterParameters = typing.TypedDict('V3dTfitterParameters', {
|
|
|
34
55
|
"mask": typing.NotRequired[str | None],
|
|
35
56
|
"quiet": bool,
|
|
36
57
|
})
|
|
37
|
-
|
|
38
|
-
|
|
39
|
-
def dyn_cargs(
|
|
40
|
-
t: str,
|
|
41
|
-
) -> typing.Any:
|
|
42
|
-
"""
|
|
43
|
-
Get build cargs function by command type.
|
|
44
|
-
|
|
45
|
-
Args:
|
|
46
|
-
t: Command type.
|
|
47
|
-
Returns:
|
|
48
|
-
Build cargs function.
|
|
49
|
-
"""
|
|
50
|
-
return {
|
|
51
|
-
"3dTfitter": v_3d_tfitter_cargs,
|
|
52
|
-
}.get(t)
|
|
53
|
-
|
|
54
|
-
|
|
55
|
-
def dyn_outputs(
|
|
56
|
-
t: str,
|
|
57
|
-
) -> typing.Any:
|
|
58
|
-
"""
|
|
59
|
-
Get build outputs function by command type.
|
|
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def v_3d_tfitter_execute(
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"""
|
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|
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++ This flexibility (for voxel-wise regressors) is one feature
|
|
@@ -316,10 +307,12 @@ def v_3d_tfitter_execute(
|
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317
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Args:
|
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params: The parameters.
|
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|
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|
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|
|
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NamedTuple of outputs (described in `V3dTfitterOutputs`).
|
|
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|
"""
|
|
314
|
+
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|
|
315
|
+
execution = runner.start_execution(V_3D_TFITTER_METADATA)
|
|
323
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|
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|
|
324
317
|
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|
|
325
318
|
ret = v_3d_tfitter_outputs(params, execution)
|
|
@@ -349,6 +342,8 @@ def v_3d_tfitter(
|
|
|
349
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|
runner: Runner | None = None,
|
|
350
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|
) -> V3dTfitterOutputs:
|
|
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|
"""
|
|
345
|
+
3dTfitter
|
|
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|
+
|
|
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* At each voxel, assembles and solves a set of linear equations.
|
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|
++ The matrix at each voxel may be the same or may be different.
|
|
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349
|
++ This flexibility (for voxel-wise regressors) is one feature
|
|
@@ -396,8 +391,6 @@ def v_3d_tfitter(
|
|
|
396
391
|
Returns:
|
|
397
392
|
NamedTuple of outputs (described in `V3dTfitterOutputs`).
|
|
398
393
|
"""
|
|
399
|
-
runner = runner or get_global_runner()
|
|
400
|
-
execution = runner.start_execution(V_3D_TFITTER_METADATA)
|
|
401
394
|
params = v_3d_tfitter_params(
|
|
402
395
|
rhs=rhs,
|
|
403
396
|
lhs=lhs,
|
|
@@ -418,13 +411,13 @@ def v_3d_tfitter(
|
|
|
418
411
|
mask=mask,
|
|
419
412
|
quiet=quiet,
|
|
420
413
|
)
|
|
421
|
-
return v_3d_tfitter_execute(params,
|
|
414
|
+
return v_3d_tfitter_execute(params, runner)
|
|
422
415
|
|
|
423
416
|
|
|
424
417
|
__all__ = [
|
|
425
418
|
"V3dTfitterOutputs",
|
|
426
|
-
"V3dTfitterParameters",
|
|
427
419
|
"V_3D_TFITTER_METADATA",
|
|
428
420
|
"v_3d_tfitter",
|
|
421
|
+
"v_3d_tfitter_execute",
|
|
429
422
|
"v_3d_tfitter_params",
|
|
430
423
|
]
|
|
@@ -6,7 +6,7 @@ import pathlib
|
|
|
6
6
|
from styxdefs import *
|
|
7
7
|
|
|
8
8
|
V_3D_THREETO_RGB_METADATA = Metadata(
|
|
9
|
-
id="
|
|
9
|
+
id="f4ddee1d7e220b57e9ab948d804be5fbf2aecce3.boutiques",
|
|
10
10
|
name="3dThreetoRGB",
|
|
11
11
|
package="afni",
|
|
12
12
|
container_image_tag="afni/afni_make_build:AFNI_24.2.06",
|
|
@@ -14,7 +14,18 @@ V_3D_THREETO_RGB_METADATA = Metadata(
|
|
|
14
14
|
|
|
15
15
|
|
|
16
16
|
V3dThreetoRgbParameters = typing.TypedDict('V3dThreetoRgbParameters', {
|
|
17
|
-
"
|
|
17
|
+
"@type": typing.NotRequired[typing.Literal["afni/3dThreetoRGB"]],
|
|
18
|
+
"output_prefix": typing.NotRequired[str | None],
|
|
19
|
+
"scale_factor": typing.NotRequired[float | None],
|
|
20
|
+
"mask_dataset": typing.NotRequired[InputPathType | None],
|
|
21
|
+
"fim": bool,
|
|
22
|
+
"anat": bool,
|
|
23
|
+
"input_dataset": InputPathType,
|
|
24
|
+
"input_dataset2": typing.NotRequired[InputPathType | None],
|
|
25
|
+
"input_dataset3": typing.NotRequired[InputPathType | None],
|
|
26
|
+
})
|
|
27
|
+
V3dThreetoRgbParametersTagged = typing.TypedDict('V3dThreetoRgbParametersTagged', {
|
|
28
|
+
"@type": typing.Literal["afni/3dThreetoRGB"],
|
|
18
29
|
"output_prefix": typing.NotRequired[str | None],
|
|
19
30
|
"scale_factor": typing.NotRequired[float | None],
|
|
20
31
|
"mask_dataset": typing.NotRequired[InputPathType | None],
|
|
@@ -24,43 +35,11 @@ V3dThreetoRgbParameters = typing.TypedDict('V3dThreetoRgbParameters', {
|
|
|
24
35
|
"input_dataset2": typing.NotRequired[InputPathType | None],
|
|
25
36
|
"input_dataset3": typing.NotRequired[InputPathType | None],
|
|
26
37
|
})
|
|
27
|
-
|
|
28
|
-
|
|
29
|
-
def dyn_cargs(
|
|
30
|
-
t: str,
|
|
31
|
-
) -> typing.Any:
|
|
32
|
-
"""
|
|
33
|
-
Get build cargs function by command type.
|
|
34
|
-
|
|
35
|
-
Args:
|
|
36
|
-
t: Command type.
|
|
37
|
-
Returns:
|
|
38
|
-
Build cargs function.
|
|
39
|
-
"""
|
|
40
|
-
return {
|
|
41
|
-
"3dThreetoRGB": v_3d_threeto_rgb_cargs,
|
|
42
|
-
}.get(t)
|
|
43
|
-
|
|
44
|
-
|
|
45
|
-
def dyn_outputs(
|
|
46
|
-
t: str,
|
|
47
|
-
) -> typing.Any:
|
|
48
|
-
"""
|
|
49
|
-
Get build outputs function by command type.
|
|
50
|
-
|
|
51
|
-
Args:
|
|
52
|
-
t: Command type.
|
|
53
|
-
Returns:
|
|
54
|
-
Build outputs function.
|
|
55
|
-
"""
|
|
56
|
-
return {
|
|
57
|
-
"3dThreetoRGB": v_3d_threeto_rgb_outputs,
|
|
58
|
-
}.get(t)
|
|
59
38
|
|
|
60
39
|
|
|
61
40
|
class V3dThreetoRgbOutputs(typing.NamedTuple):
|
|
62
41
|
"""
|
|
63
|
-
Output object returned when calling `
|
|
42
|
+
Output object returned when calling `V3dThreetoRgbParameters(...)`.
|
|
64
43
|
"""
|
|
65
44
|
root: OutputPathType
|
|
66
45
|
"""Output root folder. This is the root folder for all outputs."""
|
|
@@ -79,7 +58,7 @@ def v_3d_threeto_rgb_params(
|
|
|
79
58
|
anat: bool = False,
|
|
80
59
|
input_dataset2: InputPathType | None = None,
|
|
81
60
|
input_dataset3: InputPathType | None = None,
|
|
82
|
-
) ->
|
|
61
|
+
) -> V3dThreetoRgbParametersTagged:
|
|
83
62
|
"""
|
|
84
63
|
Build parameters.
|
|
85
64
|
|
|
@@ -100,7 +79,7 @@ def v_3d_threeto_rgb_params(
|
|
|
100
79
|
Parameter dictionary
|
|
101
80
|
"""
|
|
102
81
|
params = {
|
|
103
|
-
"
|
|
82
|
+
"@type": "afni/3dThreetoRGB",
|
|
104
83
|
"fim": fim,
|
|
105
84
|
"anat": anat,
|
|
106
85
|
"input_dataset": input_dataset,
|
|
@@ -133,30 +112,30 @@ def v_3d_threeto_rgb_cargs(
|
|
|
133
112
|
"""
|
|
134
113
|
cargs = []
|
|
135
114
|
cargs.append("3dThreetoRGB")
|
|
136
|
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|
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+
if params.get("output_prefix", None) is not None:
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cargs.extend([
|
|
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"-prefix",
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params.get("output_prefix")
|
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+
params.get("output_prefix", None)
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])
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|
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if params.get("scale_factor", None) is not None:
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cargs.extend([
|
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"-scale",
|
|
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str(params.get("scale_factor"))
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str(params.get("scale_factor", None))
|
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])
|
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if params.get("mask_dataset") is not None:
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if params.get("mask_dataset", None) is not None:
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"-mask",
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execution.input_file(params.get("mask_dataset"))
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execution.input_file(params.get("mask_dataset", None))
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])
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if params.get("fim"):
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if params.get("anat", False):
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cargs.append(execution.input_file(params.get("input_dataset")))
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if params.get("input_dataset2") is not None:
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cargs.append(execution.input_file(params.get("input_dataset2")))
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if params.get("input_dataset3") is not None:
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cargs.append(execution.input_file(params.get("input_dataset3")))
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cargs.append(execution.input_file(params.get("input_dataset", None)))
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cargs.append(execution.input_file(params.get("input_dataset2", None)))
|
|
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+
if params.get("input_dataset3", None) is not None:
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cargs.append(execution.input_file(params.get("input_dataset3", None)))
|
|
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139
|
return cargs
|
|
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140
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|
|
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141
|
|
|
@@ -175,17 +154,19 @@ def v_3d_threeto_rgb_outputs(
|
|
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154
|
"""
|
|
176
155
|
ret = V3dThreetoRgbOutputs(
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root=execution.output_file("."),
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output_dataset_head=execution.output_file(params.get("output_prefix") + "+rgb.HEAD") if (params.get("output_prefix") is not None) else None,
|
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output_dataset_brik=execution.output_file(params.get("output_prefix") + "+rgb.BRIK") if (params.get("output_prefix") is not None) else None,
|
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+
output_dataset_head=execution.output_file(params.get("output_prefix", None) + "+rgb.HEAD") if (params.get("output_prefix") is not None) else None,
|
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+
output_dataset_brik=execution.output_file(params.get("output_prefix", None) + "+rgb.BRIK") if (params.get("output_prefix") is not None) else None,
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)
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return ret
|
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|
def v_3d_threeto_rgb_execute(
|
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|
params: V3dThreetoRgbParameters,
|
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-
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+
runner: Runner | None = None,
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166
|
) -> V3dThreetoRgbOutputs:
|
|
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|
"""
|
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+
3dThreetoRGB
|
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+
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|
Converts 3 sub-bricks of input to an RGB-valued dataset.
|
|
190
171
|
|
|
191
172
|
Author: AFNI Developers
|
|
@@ -194,10 +175,12 @@ def v_3d_threeto_rgb_execute(
|
|
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194
175
|
|
|
195
176
|
Args:
|
|
196
177
|
params: The parameters.
|
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|
-
|
|
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|
+
runner: Command runner.
|
|
198
179
|
Returns:
|
|
199
180
|
NamedTuple of outputs (described in `V3dThreetoRgbOutputs`).
|
|
200
181
|
"""
|
|
182
|
+
runner = runner or get_global_runner()
|
|
183
|
+
execution = runner.start_execution(V_3D_THREETO_RGB_METADATA)
|
|
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184
|
params = execution.params(params)
|
|
202
185
|
cargs = v_3d_threeto_rgb_cargs(params, execution)
|
|
203
186
|
ret = v_3d_threeto_rgb_outputs(params, execution)
|
|
@@ -217,6 +200,8 @@ def v_3d_threeto_rgb(
|
|
|
217
200
|
runner: Runner | None = None,
|
|
218
201
|
) -> V3dThreetoRgbOutputs:
|
|
219
202
|
"""
|
|
203
|
+
3dThreetoRGB
|
|
204
|
+
|
|
220
205
|
Converts 3 sub-bricks of input to an RGB-valued dataset.
|
|
221
206
|
|
|
222
207
|
Author: AFNI Developers
|
|
@@ -240,8 +225,6 @@ def v_3d_threeto_rgb(
|
|
|
240
225
|
Returns:
|
|
241
226
|
NamedTuple of outputs (described in `V3dThreetoRgbOutputs`).
|
|
242
227
|
"""
|
|
243
|
-
runner = runner or get_global_runner()
|
|
244
|
-
execution = runner.start_execution(V_3D_THREETO_RGB_METADATA)
|
|
245
228
|
params = v_3d_threeto_rgb_params(
|
|
246
229
|
output_prefix=output_prefix,
|
|
247
230
|
scale_factor=scale_factor,
|
|
@@ -252,13 +235,13 @@ def v_3d_threeto_rgb(
|
|
|
252
235
|
input_dataset2=input_dataset2,
|
|
253
236
|
input_dataset3=input_dataset3,
|
|
254
237
|
)
|
|
255
|
-
return v_3d_threeto_rgb_execute(params,
|
|
238
|
+
return v_3d_threeto_rgb_execute(params, runner)
|
|
256
239
|
|
|
257
240
|
|
|
258
241
|
__all__ = [
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|
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242
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"V3dThreetoRgbOutputs",
|
|
260
|
-
"V3dThreetoRgbParameters",
|
|
261
243
|
"V_3D_THREETO_RGB_METADATA",
|
|
262
244
|
"v_3d_threeto_rgb",
|
|
245
|
+
"v_3d_threeto_rgb_execute",
|
|
263
246
|
"v_3d_threeto_rgb_params",
|
|
264
247
|
]
|
niwrap_afni/afni/v_3d_tnorm.py
CHANGED
|
@@ -6,7 +6,7 @@ import pathlib
|
|
|
6
6
|
from styxdefs import *
|
|
7
7
|
|
|
8
8
|
V_3D_TNORM_METADATA = Metadata(
|
|
9
|
-
id="
|
|
9
|
+
id="7f2e7dc2e7d52489c9bd56c37e8353d2ad4b12ba.boutiques",
|
|
10
10
|
name="3dTnorm",
|
|
11
11
|
package="afni",
|
|
12
12
|
container_image_tag="afni/afni_make_build:AFNI_24.2.06",
|
|
@@ -14,7 +14,18 @@ V_3D_TNORM_METADATA = Metadata(
|
|
|
14
14
|
|
|
15
15
|
|
|
16
16
|
V3dTnormParameters = typing.TypedDict('V3dTnormParameters', {
|
|
17
|
-
"
|
|
17
|
+
"@type": typing.NotRequired[typing.Literal["afni/3dTnorm"]],
|
|
18
|
+
"prefix": typing.NotRequired[str | None],
|
|
19
|
+
"norm2": bool,
|
|
20
|
+
"normR": bool,
|
|
21
|
+
"norm1": bool,
|
|
22
|
+
"normx": bool,
|
|
23
|
+
"polort": typing.NotRequired[float | None],
|
|
24
|
+
"L1fit": bool,
|
|
25
|
+
"input_dataset": InputPathType,
|
|
26
|
+
})
|
|
27
|
+
V3dTnormParametersTagged = typing.TypedDict('V3dTnormParametersTagged', {
|
|
28
|
+
"@type": typing.Literal["afni/3dTnorm"],
|
|
18
29
|
"prefix": typing.NotRequired[str | None],
|
|
19
30
|
"norm2": bool,
|
|
20
31
|
"normR": bool,
|
|
@@ -24,43 +35,11 @@ V3dTnormParameters = typing.TypedDict('V3dTnormParameters', {
|
|
|
24
35
|
"L1fit": bool,
|
|
25
36
|
"input_dataset": InputPathType,
|
|
26
37
|
})
|
|
27
|
-
|
|
28
|
-
|
|
29
|
-
def dyn_cargs(
|
|
30
|
-
t: str,
|
|
31
|
-
) -> typing.Any:
|
|
32
|
-
"""
|
|
33
|
-
Get build cargs function by command type.
|
|
34
|
-
|
|
35
|
-
Args:
|
|
36
|
-
t: Command type.
|
|
37
|
-
Returns:
|
|
38
|
-
Build cargs function.
|
|
39
|
-
"""
|
|
40
|
-
return {
|
|
41
|
-
"3dTnorm": v_3d_tnorm_cargs,
|
|
42
|
-
}.get(t)
|
|
43
|
-
|
|
44
|
-
|
|
45
|
-
def dyn_outputs(
|
|
46
|
-
t: str,
|
|
47
|
-
) -> typing.Any:
|
|
48
|
-
"""
|
|
49
|
-
Get build outputs function by command type.
|
|
50
|
-
|
|
51
|
-
Args:
|
|
52
|
-
t: Command type.
|
|
53
|
-
Returns:
|
|
54
|
-
Build outputs function.
|
|
55
|
-
"""
|
|
56
|
-
return {
|
|
57
|
-
"3dTnorm": v_3d_tnorm_outputs,
|
|
58
|
-
}.get(t)
|
|
59
38
|
|
|
60
39
|
|
|
61
40
|
class V3dTnormOutputs(typing.NamedTuple):
|
|
62
41
|
"""
|
|
63
|
-
Output object returned when calling `
|
|
42
|
+
Output object returned when calling `V3dTnormParameters(...)`.
|
|
64
43
|
"""
|
|
65
44
|
root: OutputPathType
|
|
66
45
|
"""Output root folder. This is the root folder for all outputs."""
|
|
@@ -77,7 +56,7 @@ def v_3d_tnorm_params(
|
|
|
77
56
|
normx: bool = False,
|
|
78
57
|
polort: float | None = None,
|
|
79
58
|
l1fit: bool = False,
|
|
80
|
-
) ->
|
|
59
|
+
) -> V3dTnormParametersTagged:
|
|
81
60
|
"""
|
|
82
61
|
Build parameters.
|
|
83
62
|
|
|
@@ -94,7 +73,7 @@ def v_3d_tnorm_params(
|
|
|
94
73
|
Parameter dictionary
|
|
95
74
|
"""
|
|
96
75
|
params = {
|
|
97
|
-
"
|
|
76
|
+
"@type": "afni/3dTnorm",
|
|
98
77
|
"norm2": norm2,
|
|
99
78
|
"normR": norm_r,
|
|
100
79
|
"norm1": norm1,
|
|
@@ -124,27 +103,27 @@ def v_3d_tnorm_cargs(
|
|
|
124
103
|
"""
|
|
125
104
|
cargs = []
|
|
126
105
|
cargs.append("3dTnorm")
|
|
127
|
-
if params.get("prefix") is not None:
|
|
106
|
+
if params.get("prefix", None) is not None:
|
|
128
107
|
cargs.extend([
|
|
129
108
|
"-prefix",
|
|
130
|
-
params.get("prefix")
|
|
109
|
+
params.get("prefix", None)
|
|
131
110
|
])
|
|
132
|
-
if params.get("norm2"):
|
|
111
|
+
if params.get("norm2", False):
|
|
133
112
|
cargs.append("-norm2")
|
|
134
|
-
if params.get("normR"):
|
|
113
|
+
if params.get("normR", False):
|
|
135
114
|
cargs.append("-normR")
|
|
136
|
-
if params.get("norm1"):
|
|
115
|
+
if params.get("norm1", False):
|
|
137
116
|
cargs.append("-norm1")
|
|
138
|
-
if params.get("normx"):
|
|
117
|
+
if params.get("normx", False):
|
|
139
118
|
cargs.append("-normx")
|
|
140
|
-
if params.get("polort") is not None:
|
|
119
|
+
if params.get("polort", None) is not None:
|
|
141
120
|
cargs.extend([
|
|
142
121
|
"-polort",
|
|
143
|
-
str(params.get("polort"))
|
|
122
|
+
str(params.get("polort", None))
|
|
144
123
|
])
|
|
145
|
-
if params.get("L1fit"):
|
|
124
|
+
if params.get("L1fit", False):
|
|
146
125
|
cargs.append("-L1fit")
|
|
147
|
-
cargs.append(execution.input_file(params.get("input_dataset")))
|
|
126
|
+
cargs.append(execution.input_file(params.get("input_dataset", None)))
|
|
148
127
|
return cargs
|
|
149
128
|
|
|
150
129
|
|
|
@@ -163,16 +142,18 @@ def v_3d_tnorm_outputs(
|
|
|
163
142
|
"""
|
|
164
143
|
ret = V3dTnormOutputs(
|
|
165
144
|
root=execution.output_file("."),
|
|
166
|
-
output_dataset=execution.output_file(params.get("prefix") + ".nii") if (params.get("prefix") is not None) else None,
|
|
145
|
+
output_dataset=execution.output_file(params.get("prefix", None) + ".nii") if (params.get("prefix") is not None) else None,
|
|
167
146
|
)
|
|
168
147
|
return ret
|
|
169
148
|
|
|
170
149
|
|
|
171
150
|
def v_3d_tnorm_execute(
|
|
172
151
|
params: V3dTnormParameters,
|
|
173
|
-
|
|
152
|
+
runner: Runner | None = None,
|
|
174
153
|
) -> V3dTnormOutputs:
|
|
175
154
|
"""
|
|
155
|
+
3dTnorm
|
|
156
|
+
|
|
176
157
|
Normalizes each voxel time series by multiplicative scaling.
|
|
177
158
|
|
|
178
159
|
Author: AFNI Developers
|
|
@@ -181,10 +162,12 @@ def v_3d_tnorm_execute(
|
|
|
181
162
|
|
|
182
163
|
Args:
|
|
183
164
|
params: The parameters.
|
|
184
|
-
|
|
165
|
+
runner: Command runner.
|
|
185
166
|
Returns:
|
|
186
167
|
NamedTuple of outputs (described in `V3dTnormOutputs`).
|
|
187
168
|
"""
|
|
169
|
+
runner = runner or get_global_runner()
|
|
170
|
+
execution = runner.start_execution(V_3D_TNORM_METADATA)
|
|
188
171
|
params = execution.params(params)
|
|
189
172
|
cargs = v_3d_tnorm_cargs(params, execution)
|
|
190
173
|
ret = v_3d_tnorm_outputs(params, execution)
|
|
@@ -204,6 +187,8 @@ def v_3d_tnorm(
|
|
|
204
187
|
runner: Runner | None = None,
|
|
205
188
|
) -> V3dTnormOutputs:
|
|
206
189
|
"""
|
|
190
|
+
3dTnorm
|
|
191
|
+
|
|
207
192
|
Normalizes each voxel time series by multiplicative scaling.
|
|
208
193
|
|
|
209
194
|
Author: AFNI Developers
|
|
@@ -223,8 +208,6 @@ def v_3d_tnorm(
|
|
|
223
208
|
Returns:
|
|
224
209
|
NamedTuple of outputs (described in `V3dTnormOutputs`).
|
|
225
210
|
"""
|
|
226
|
-
runner = runner or get_global_runner()
|
|
227
|
-
execution = runner.start_execution(V_3D_TNORM_METADATA)
|
|
228
211
|
params = v_3d_tnorm_params(
|
|
229
212
|
prefix=prefix,
|
|
230
213
|
norm2=norm2,
|
|
@@ -235,13 +218,13 @@ def v_3d_tnorm(
|
|
|
235
218
|
l1fit=l1fit,
|
|
236
219
|
input_dataset=input_dataset,
|
|
237
220
|
)
|
|
238
|
-
return v_3d_tnorm_execute(params,
|
|
221
|
+
return v_3d_tnorm_execute(params, runner)
|
|
239
222
|
|
|
240
223
|
|
|
241
224
|
__all__ = [
|
|
242
225
|
"V3dTnormOutputs",
|
|
243
|
-
"V3dTnormParameters",
|
|
244
226
|
"V_3D_TNORM_METADATA",
|
|
245
227
|
"v_3d_tnorm",
|
|
228
|
+
"v_3d_tnorm_execute",
|
|
246
229
|
"v_3d_tnorm_params",
|
|
247
230
|
]
|