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
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- niwrap_afni/afni/v_3d_re_ho.py +65 -76
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- 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
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- 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
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- 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
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- niwrap_afni/afni/v_3d_tcorr1_d.py +40 -57
- niwrap_afni/afni/v_3d_tcorr_map.py +66 -73
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- 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
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root: OutputPathType
|
|
64
41
|
"""Output root folder. This is the root folder for all outputs."""
|
|
@@ -85,7 +62,7 @@ def v_3d_amp_to_rsfc_params(
|
|
|
85
62
|
in_pow: InputPathType | None = None,
|
|
86
63
|
mask: InputPathType | None = None,
|
|
87
64
|
nifti: bool = False,
|
|
88
|
-
) ->
|
|
65
|
+
) -> V3dAmpToRsfcParametersTagged:
|
|
89
66
|
"""
|
|
90
67
|
Build parameters.
|
|
91
68
|
|
|
@@ -104,7 +81,7 @@ def v_3d_amp_to_rsfc_params(
|
|
|
104
81
|
Parameter dictionary
|
|
105
82
|
"""
|
|
106
83
|
params = {
|
|
107
|
-
"
|
|
84
|
+
"@type": "afni/3dAmpToRSFC",
|
|
108
85
|
"prefix": prefix,
|
|
109
86
|
"band": band,
|
|
110
87
|
"nifti": nifti,
|
|
@@ -133,30 +110,30 @@ def v_3d_amp_to_rsfc_cargs(
|
|
|
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|
"""
|
|
134
111
|
cargs = []
|
|
135
112
|
cargs.append("3dAmpToRSFC")
|
|
136
|
-
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|
|
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|
+
if params.get("in_amp", None) is not None:
|
|
137
114
|
cargs.extend([
|
|
138
115
|
"-in_amp",
|
|
139
|
-
execution.input_file(params.get("in_amp"))
|
|
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|
+
execution.input_file(params.get("in_amp", None))
|
|
140
117
|
])
|
|
141
|
-
if params.get("in_pow") is not None:
|
|
118
|
+
if params.get("in_pow", None) is not None:
|
|
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119
|
cargs.extend([
|
|
143
120
|
"-in_pow",
|
|
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|
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execution.input_file(params.get("in_pow"))
|
|
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|
+
execution.input_file(params.get("in_pow", None))
|
|
145
122
|
])
|
|
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|
cargs.extend([
|
|
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124
|
"-prefix",
|
|
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|
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params.get("prefix")
|
|
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+
params.get("prefix", None)
|
|
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])
|
|
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|
cargs.extend([
|
|
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"-band",
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*map(str, params.get("band"))
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*map(str, params.get("band", None))
|
|
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|
])
|
|
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if params.get("mask", None) is not None:
|
|
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|
cargs.extend([
|
|
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"-mask",
|
|
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execution.input_file(params.get("mask"))
|
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execution.input_file(params.get("mask", None))
|
|
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|
])
|
|
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|
|
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if params.get("nifti", False):
|
|
160
137
|
cargs.append("-nifti")
|
|
161
138
|
return cargs
|
|
162
139
|
|
|
@@ -176,21 +153,23 @@ def v_3d_amp_to_rsfc_outputs(
|
|
|
176
153
|
"""
|
|
177
154
|
ret = V3dAmpToRsfcOutputs(
|
|
178
155
|
root=execution.output_file("."),
|
|
179
|
-
output_alff=execution.output_file(params.get("prefix") + "_ALFF
|
|
180
|
-
output_malff=execution.output_file(params.get("prefix") + "_MALFF
|
|
181
|
-
output_falff=execution.output_file(params.get("prefix") + "_FALFF
|
|
182
|
-
output_rsfa=execution.output_file(params.get("prefix") + "_RSFA
|
|
183
|
-
output_mrsfa=execution.output_file(params.get("prefix") + "_MRSFA
|
|
184
|
-
output_frsfa=execution.output_file(params.get("prefix") + "_FRSFA
|
|
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|
+
output_alff=execution.output_file(params.get("prefix", None) + "_ALFF"),
|
|
157
|
+
output_malff=execution.output_file(params.get("prefix", None) + "_MALFF"),
|
|
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|
+
output_falff=execution.output_file(params.get("prefix", None) + "_FALFF"),
|
|
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|
+
output_rsfa=execution.output_file(params.get("prefix", None) + "_RSFA"),
|
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|
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output_mrsfa=execution.output_file(params.get("prefix", None) + "_MRSFA"),
|
|
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|
+
output_frsfa=execution.output_file(params.get("prefix", None) + "_FRSFA"),
|
|
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)
|
|
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|
return ret
|
|
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164
|
|
|
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165
|
|
|
189
166
|
def v_3d_amp_to_rsfc_execute(
|
|
190
167
|
params: V3dAmpToRsfcParameters,
|
|
191
|
-
|
|
168
|
+
runner: Runner | None = None,
|
|
192
169
|
) -> V3dAmpToRsfcOutputs:
|
|
193
170
|
"""
|
|
171
|
+
3dAmpToRSFC
|
|
172
|
+
|
|
194
173
|
Convert spectral amplitudes into standard RSFC parameters.
|
|
195
174
|
|
|
196
175
|
Author: AFNI Developers
|
|
@@ -199,10 +178,12 @@ def v_3d_amp_to_rsfc_execute(
|
|
|
199
178
|
|
|
200
179
|
Args:
|
|
201
180
|
params: The parameters.
|
|
202
|
-
|
|
181
|
+
runner: Command runner.
|
|
203
182
|
Returns:
|
|
204
183
|
NamedTuple of outputs (described in `V3dAmpToRsfcOutputs`).
|
|
205
184
|
"""
|
|
185
|
+
runner = runner or get_global_runner()
|
|
186
|
+
execution = runner.start_execution(V_3D_AMP_TO_RSFC_METADATA)
|
|
206
187
|
params = execution.params(params)
|
|
207
188
|
cargs = v_3d_amp_to_rsfc_cargs(params, execution)
|
|
208
189
|
ret = v_3d_amp_to_rsfc_outputs(params, execution)
|
|
@@ -220,6 +201,8 @@ def v_3d_amp_to_rsfc(
|
|
|
220
201
|
runner: Runner | None = None,
|
|
221
202
|
) -> V3dAmpToRsfcOutputs:
|
|
222
203
|
"""
|
|
204
|
+
3dAmpToRSFC
|
|
205
|
+
|
|
223
206
|
Convert spectral amplitudes into standard RSFC parameters.
|
|
224
207
|
|
|
225
208
|
Author: AFNI Developers
|
|
@@ -241,8 +224,6 @@ def v_3d_amp_to_rsfc(
|
|
|
241
224
|
Returns:
|
|
242
225
|
NamedTuple of outputs (described in `V3dAmpToRsfcOutputs`).
|
|
243
226
|
"""
|
|
244
|
-
runner = runner or get_global_runner()
|
|
245
|
-
execution = runner.start_execution(V_3D_AMP_TO_RSFC_METADATA)
|
|
246
227
|
params = v_3d_amp_to_rsfc_params(
|
|
247
228
|
in_amp=in_amp,
|
|
248
229
|
in_pow=in_pow,
|
|
@@ -251,13 +232,13 @@ def v_3d_amp_to_rsfc(
|
|
|
251
232
|
mask=mask,
|
|
252
233
|
nifti=nifti,
|
|
253
234
|
)
|
|
254
|
-
return v_3d_amp_to_rsfc_execute(params,
|
|
235
|
+
return v_3d_amp_to_rsfc_execute(params, runner)
|
|
255
236
|
|
|
256
237
|
|
|
257
238
|
__all__ = [
|
|
258
239
|
"V3dAmpToRsfcOutputs",
|
|
259
|
-
"V3dAmpToRsfcParameters",
|
|
260
240
|
"V_3D_AMP_TO_RSFC_METADATA",
|
|
261
241
|
"v_3d_amp_to_rsfc",
|
|
242
|
+
"v_3d_amp_to_rsfc_execute",
|
|
262
243
|
"v_3d_amp_to_rsfc_params",
|
|
263
244
|
]
|
niwrap_afni/afni/v_3d_anhist.py
CHANGED
|
@@ -6,7 +6,7 @@ import pathlib
|
|
|
6
6
|
from styxdefs import *
|
|
7
7
|
|
|
8
8
|
V_3D_ANHIST_METADATA = Metadata(
|
|
9
|
-
id="
|
|
9
|
+
id="c40972f414c2d5996b16432a9c6b6450fc0e7b2a.boutiques",
|
|
10
10
|
name="3dAnhist",
|
|
11
11
|
package="afni",
|
|
12
12
|
container_image_tag="afni/afni_make_build:AFNI_24.2.06",
|
|
@@ -14,7 +14,18 @@ V_3D_ANHIST_METADATA = Metadata(
|
|
|
14
14
|
|
|
15
15
|
|
|
16
16
|
V3dAnhistParameters = typing.TypedDict('V3dAnhistParameters', {
|
|
17
|
-
"
|
|
17
|
+
"@type": typing.NotRequired[typing.Literal["afni/3dAnhist"]],
|
|
18
|
+
"dataset": InputPathType,
|
|
19
|
+
"quiet": bool,
|
|
20
|
+
"dump_histogram": bool,
|
|
21
|
+
"no_scurve": bool,
|
|
22
|
+
"winsorize": typing.NotRequired[str | None],
|
|
23
|
+
"top_2peaks": bool,
|
|
24
|
+
"label": typing.NotRequired[str | None],
|
|
25
|
+
"filename": typing.NotRequired[str | None],
|
|
26
|
+
})
|
|
27
|
+
V3dAnhistParametersTagged = typing.TypedDict('V3dAnhistParametersTagged', {
|
|
28
|
+
"@type": typing.Literal["afni/3dAnhist"],
|
|
18
29
|
"dataset": InputPathType,
|
|
19
30
|
"quiet": bool,
|
|
20
31
|
"dump_histogram": bool,
|
|
@@ -24,43 +35,11 @@ V3dAnhistParameters = typing.TypedDict('V3dAnhistParameters', {
|
|
|
24
35
|
"label": typing.NotRequired[str | None],
|
|
25
36
|
"filename": typing.NotRequired[str | 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
|
-
"3dAnhist": v_3d_anhist_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
|
-
"3dAnhist": v_3d_anhist_outputs,
|
|
58
|
-
}.get(t)
|
|
59
38
|
|
|
60
39
|
|
|
61
40
|
class V3dAnhistOutputs(typing.NamedTuple):
|
|
62
41
|
"""
|
|
63
|
-
Output object returned when calling `
|
|
42
|
+
Output object returned when calling `V3dAnhistParameters(...)`.
|
|
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_anhist_params(
|
|
|
79
58
|
top_2peaks: bool = False,
|
|
80
59
|
label: str | None = None,
|
|
81
60
|
filename: str | None = None,
|
|
82
|
-
) ->
|
|
61
|
+
) -> V3dAnhistParametersTagged:
|
|
83
62
|
"""
|
|
84
63
|
Build parameters.
|
|
85
64
|
|
|
@@ -99,7 +78,7 @@ def v_3d_anhist_params(
|
|
|
99
78
|
Parameter dictionary
|
|
100
79
|
"""
|
|
101
80
|
params = {
|
|
102
|
-
"
|
|
81
|
+
"@type": "afni/3dAnhist",
|
|
103
82
|
"dataset": dataset,
|
|
104
83
|
"quiet": quiet,
|
|
105
84
|
"dump_histogram": dump_histogram,
|
|
@@ -130,29 +109,29 @@ def v_3d_anhist_cargs(
|
|
|
130
109
|
"""
|
|
131
110
|
cargs = []
|
|
132
111
|
cargs.append("3dAnhist")
|
|
133
|
-
cargs.append(execution.input_file(params.get("dataset")))
|
|
134
|
-
if params.get("quiet"):
|
|
112
|
+
cargs.append(execution.input_file(params.get("dataset", None)))
|
|
113
|
+
if params.get("quiet", False):
|
|
135
114
|
cargs.append("-q")
|
|
136
|
-
if params.get("dump_histogram"):
|
|
115
|
+
if params.get("dump_histogram", False):
|
|
137
116
|
cargs.append("-h")
|
|
138
|
-
if params.get("no_scurve"):
|
|
117
|
+
if params.get("no_scurve", False):
|
|
139
118
|
cargs.append("-F")
|
|
140
|
-
if params.get("winsorize") is not None:
|
|
119
|
+
if params.get("winsorize", None) is not None:
|
|
141
120
|
cargs.extend([
|
|
142
121
|
"-w",
|
|
143
|
-
params.get("winsorize")
|
|
122
|
+
params.get("winsorize", None)
|
|
144
123
|
])
|
|
145
|
-
if params.get("top_2peaks"):
|
|
124
|
+
if params.get("top_2peaks", False):
|
|
146
125
|
cargs.append("-2")
|
|
147
|
-
if params.get("label") is not None:
|
|
126
|
+
if params.get("label", None) is not None:
|
|
148
127
|
cargs.extend([
|
|
149
128
|
"-label",
|
|
150
|
-
params.get("label")
|
|
129
|
+
params.get("label", None)
|
|
151
130
|
])
|
|
152
|
-
if params.get("filename") is not None:
|
|
131
|
+
if params.get("filename", None) is not None:
|
|
153
132
|
cargs.extend([
|
|
154
133
|
"-fname",
|
|
155
|
-
params.get("filename")
|
|
134
|
+
params.get("filename", None)
|
|
156
135
|
])
|
|
157
136
|
return cargs
|
|
158
137
|
|
|
@@ -180,10 +159,13 @@ def v_3d_anhist_outputs(
|
|
|
180
159
|
|
|
181
160
|
def v_3d_anhist_execute(
|
|
182
161
|
params: V3dAnhistParameters,
|
|
183
|
-
|
|
162
|
+
runner: Runner | None = None,
|
|
184
163
|
) -> V3dAnhistOutputs:
|
|
185
164
|
"""
|
|
186
|
-
|
|
165
|
+
3dAnhist
|
|
166
|
+
|
|
167
|
+
Tool to analyze histogram peaks in a T1-weighted high-res brain image
|
|
168
|
+
dataset.
|
|
187
169
|
|
|
188
170
|
Author: AFNI Developers
|
|
189
171
|
|
|
@@ -191,10 +173,12 @@ def v_3d_anhist_execute(
|
|
|
191
173
|
|
|
192
174
|
Args:
|
|
193
175
|
params: The parameters.
|
|
194
|
-
|
|
176
|
+
runner: Command runner.
|
|
195
177
|
Returns:
|
|
196
178
|
NamedTuple of outputs (described in `V3dAnhistOutputs`).
|
|
197
179
|
"""
|
|
180
|
+
runner = runner or get_global_runner()
|
|
181
|
+
execution = runner.start_execution(V_3D_ANHIST_METADATA)
|
|
198
182
|
params = execution.params(params)
|
|
199
183
|
cargs = v_3d_anhist_cargs(params, execution)
|
|
200
184
|
ret = v_3d_anhist_outputs(params, execution)
|
|
@@ -214,7 +198,10 @@ def v_3d_anhist(
|
|
|
214
198
|
runner: Runner | None = None,
|
|
215
199
|
) -> V3dAnhistOutputs:
|
|
216
200
|
"""
|
|
217
|
-
|
|
201
|
+
3dAnhist
|
|
202
|
+
|
|
203
|
+
Tool to analyze histogram peaks in a T1-weighted high-res brain image
|
|
204
|
+
dataset.
|
|
218
205
|
|
|
219
206
|
Author: AFNI Developers
|
|
220
207
|
|
|
@@ -236,8 +223,6 @@ def v_3d_anhist(
|
|
|
236
223
|
Returns:
|
|
237
224
|
NamedTuple of outputs (described in `V3dAnhistOutputs`).
|
|
238
225
|
"""
|
|
239
|
-
runner = runner or get_global_runner()
|
|
240
|
-
execution = runner.start_execution(V_3D_ANHIST_METADATA)
|
|
241
226
|
params = v_3d_anhist_params(
|
|
242
227
|
dataset=dataset,
|
|
243
228
|
quiet=quiet,
|
|
@@ -248,13 +233,13 @@ def v_3d_anhist(
|
|
|
248
233
|
label=label,
|
|
249
234
|
filename=filename,
|
|
250
235
|
)
|
|
251
|
-
return v_3d_anhist_execute(params,
|
|
236
|
+
return v_3d_anhist_execute(params, runner)
|
|
252
237
|
|
|
253
238
|
|
|
254
239
|
__all__ = [
|
|
255
240
|
"V3dAnhistOutputs",
|
|
256
|
-
"V3dAnhistParameters",
|
|
257
241
|
"V_3D_ANHIST_METADATA",
|
|
258
242
|
"v_3d_anhist",
|
|
243
|
+
"v_3d_anhist_execute",
|
|
259
244
|
"v_3d_anhist_params",
|
|
260
245
|
]
|
niwrap_afni/afni/v_3d_anova.py
CHANGED
|
@@ -6,7 +6,7 @@ import pathlib
|
|
|
6
6
|
from styxdefs import *
|
|
7
7
|
|
|
8
8
|
V_3D_ANOVA_METADATA = Metadata(
|
|
9
|
-
id="
|
|
9
|
+
id="d6eed026bc71b24760c5cfa681faaf549200477b.boutiques",
|
|
10
10
|
name="3dANOVA",
|
|
11
11
|
package="afni",
|
|
12
12
|
container_image_tag="afni/afni_make_build:AFNI_24.2.06",
|
|
@@ -14,7 +14,24 @@ V_3D_ANOVA_METADATA = Metadata(
|
|
|
14
14
|
|
|
15
15
|
|
|
16
16
|
V3dAnovaParameters = typing.TypedDict('V3dAnovaParameters', {
|
|
17
|
-
"
|
|
17
|
+
"@type": typing.NotRequired[typing.Literal["afni/3dANOVA"]],
|
|
18
|
+
"levels": int,
|
|
19
|
+
"datasets": list[str],
|
|
20
|
+
"voxel": typing.NotRequired[int | None],
|
|
21
|
+
"diskspace": bool,
|
|
22
|
+
"mask": typing.NotRequired[InputPathType | None],
|
|
23
|
+
"debug": typing.NotRequired[int | None],
|
|
24
|
+
"ftr": typing.NotRequired[str | None],
|
|
25
|
+
"mean": typing.NotRequired[str | None],
|
|
26
|
+
"diff": typing.NotRequired[str | None],
|
|
27
|
+
"contr": typing.NotRequired[str | None],
|
|
28
|
+
"old_method": bool,
|
|
29
|
+
"ok": bool,
|
|
30
|
+
"assume_sph": bool,
|
|
31
|
+
"bucket": typing.NotRequired[str | None],
|
|
32
|
+
})
|
|
33
|
+
V3dAnovaParametersTagged = typing.TypedDict('V3dAnovaParametersTagged', {
|
|
34
|
+
"@type": typing.Literal["afni/3dANOVA"],
|
|
18
35
|
"levels": int,
|
|
19
36
|
"datasets": list[str],
|
|
20
37
|
"voxel": typing.NotRequired[int | None],
|
|
@@ -30,43 +47,11 @@ V3dAnovaParameters = typing.TypedDict('V3dAnovaParameters', {
|
|
|
30
47
|
"assume_sph": bool,
|
|
31
48
|
"bucket": typing.NotRequired[str | None],
|
|
32
49
|
})
|
|
33
|
-
|
|
34
|
-
|
|
35
|
-
def dyn_cargs(
|
|
36
|
-
t: str,
|
|
37
|
-
) -> typing.Any:
|
|
38
|
-
"""
|
|
39
|
-
Get build cargs function by command type.
|
|
40
|
-
|
|
41
|
-
Args:
|
|
42
|
-
t: Command type.
|
|
43
|
-
Returns:
|
|
44
|
-
Build cargs function.
|
|
45
|
-
"""
|
|
46
|
-
return {
|
|
47
|
-
"3dANOVA": v_3d_anova_cargs,
|
|
48
|
-
}.get(t)
|
|
49
|
-
|
|
50
|
-
|
|
51
|
-
def dyn_outputs(
|
|
52
|
-
t: str,
|
|
53
|
-
) -> typing.Any:
|
|
54
|
-
"""
|
|
55
|
-
Get build outputs function by command type.
|
|
56
|
-
|
|
57
|
-
Args:
|
|
58
|
-
t: Command type.
|
|
59
|
-
Returns:
|
|
60
|
-
Build outputs function.
|
|
61
|
-
"""
|
|
62
|
-
return {
|
|
63
|
-
"3dANOVA": v_3d_anova_outputs,
|
|
64
|
-
}.get(t)
|
|
65
50
|
|
|
66
51
|
|
|
67
52
|
class V3dAnovaOutputs(typing.NamedTuple):
|
|
68
53
|
"""
|
|
69
|
-
Output object returned when calling `
|
|
54
|
+
Output object returned when calling `V3dAnovaParameters(...)`.
|
|
70
55
|
"""
|
|
71
56
|
root: OutputPathType
|
|
72
57
|
"""Output root folder. This is the root folder for all outputs."""
|
|
@@ -107,7 +92,7 @@ def v_3d_anova_params(
|
|
|
107
92
|
ok: bool = False,
|
|
108
93
|
assume_sph: bool = False,
|
|
109
94
|
bucket: str | None = None,
|
|
110
|
-
) ->
|
|
95
|
+
) -> V3dAnovaParametersTagged:
|
|
111
96
|
"""
|
|
112
97
|
Build parameters.
|
|
113
98
|
|
|
@@ -131,7 +116,7 @@ def v_3d_anova_params(
|
|
|
131
116
|
Parameter dictionary
|
|
132
117
|
"""
|
|
133
118
|
params = {
|
|
134
|
-
"
|
|
119
|
+
"@type": "afni/3dANOVA",
|
|
135
120
|
"levels": levels,
|
|
136
121
|
"datasets": datasets,
|
|
137
122
|
"diskspace": diskspace,
|
|
@@ -175,59 +160,59 @@ def v_3d_anova_cargs(
|
|
|
175
160
|
cargs.append("3dANOVA")
|
|
176
161
|
cargs.extend([
|
|
177
162
|
"-levels",
|
|
178
|
-
str(params.get("levels"))
|
|
163
|
+
str(params.get("levels", None))
|
|
179
164
|
])
|
|
180
165
|
cargs.extend([
|
|
181
166
|
"-dset",
|
|
182
|
-
*params.get("datasets")
|
|
167
|
+
*params.get("datasets", None)
|
|
183
168
|
])
|
|
184
|
-
if params.get("voxel") is not None:
|
|
169
|
+
if params.get("voxel", None) is not None:
|
|
185
170
|
cargs.extend([
|
|
186
171
|
"-voxel",
|
|
187
|
-
str(params.get("voxel"))
|
|
172
|
+
str(params.get("voxel", None))
|
|
188
173
|
])
|
|
189
|
-
if params.get("diskspace"):
|
|
174
|
+
if params.get("diskspace", False):
|
|
190
175
|
cargs.append("-diskspace")
|
|
191
|
-
if params.get("mask") is not None:
|
|
176
|
+
if params.get("mask", None) is not None:
|
|
192
177
|
cargs.extend([
|
|
193
178
|
"-mask",
|
|
194
|
-
execution.input_file(params.get("mask"))
|
|
179
|
+
execution.input_file(params.get("mask", None))
|
|
195
180
|
])
|
|
196
|
-
if params.get("debug") is not None:
|
|
181
|
+
if params.get("debug", None) is not None:
|
|
197
182
|
cargs.extend([
|
|
198
183
|
"-debug",
|
|
199
|
-
str(params.get("debug"))
|
|
184
|
+
str(params.get("debug", None))
|
|
200
185
|
])
|
|
201
|
-
if params.get("ftr") is not None:
|
|
186
|
+
if params.get("ftr", None) is not None:
|
|
202
187
|
cargs.extend([
|
|
203
188
|
"-ftr",
|
|
204
|
-
params.get("ftr")
|
|
189
|
+
params.get("ftr", None)
|
|
205
190
|
])
|
|
206
|
-
if params.get("mean") is not None:
|
|
191
|
+
if params.get("mean", None) is not None:
|
|
207
192
|
cargs.extend([
|
|
208
193
|
"-mean",
|
|
209
|
-
params.get("mean")
|
|
194
|
+
params.get("mean", None)
|
|
210
195
|
])
|
|
211
|
-
if params.get("diff") is not None:
|
|
196
|
+
if params.get("diff", None) is not None:
|
|
212
197
|
cargs.extend([
|
|
213
198
|
"-diff",
|
|
214
|
-
params.get("diff")
|
|
199
|
+
params.get("diff", None)
|
|
215
200
|
])
|
|
216
|
-
if params.get("contr") is not None:
|
|
201
|
+
if params.get("contr", None) is not None:
|
|
217
202
|
cargs.extend([
|
|
218
203
|
"-contr",
|
|
219
|
-
params.get("contr")
|
|
204
|
+
params.get("contr", None)
|
|
220
205
|
])
|
|
221
|
-
if params.get("old_method"):
|
|
206
|
+
if params.get("old_method", False):
|
|
222
207
|
cargs.append("-old_method")
|
|
223
|
-
if params.get("ok"):
|
|
208
|
+
if params.get("ok", False):
|
|
224
209
|
cargs.append("-OK")
|
|
225
|
-
if params.get("assume_sph"):
|
|
210
|
+
if params.get("assume_sph", False):
|
|
226
211
|
cargs.append("-assume_sph")
|
|
227
|
-
if params.get("bucket") is not None:
|
|
212
|
+
if params.get("bucket", None) is not None:
|
|
228
213
|
cargs.extend([
|
|
229
214
|
"-bucket",
|
|
230
|
-
params.get("bucket")
|
|
215
|
+
params.get("bucket", None)
|
|
231
216
|
])
|
|
232
217
|
return cargs
|
|
233
218
|
|
|
@@ -247,25 +232,27 @@ def v_3d_anova_outputs(
|
|
|
247
232
|
"""
|
|
248
233
|
ret = V3dAnovaOutputs(
|
|
249
234
|
root=execution.output_file("."),
|
|
250
|
-
ftr_output=execution.output_file(params.get("ftr") + ".HEAD") if (params.get("ftr") is not None) else None,
|
|
251
|
-
ftr_brick_output=execution.output_file(params.get("ftr") + ".BRIK") if (params.get("ftr") is not None) else None,
|
|
252
|
-
mean_output=execution.output_file(params.get("mean") + "_mean.HEAD") if (params.get("mean") is not None) else None,
|
|
253
|
-
mean_brick_output=execution.output_file(params.get("mean") + "_mean.BRIK") if (params.get("mean") is not None) else None,
|
|
254
|
-
diff_output=execution.output_file(params.get("diff") + "_diff.HEAD") if (params.get("diff") is not None) else None,
|
|
255
|
-
diff_brick_output=execution.output_file(params.get("diff") + "_diff.BRIK") if (params.get("diff") is not None) else None,
|
|
256
|
-
contr_output=execution.output_file(params.get("contr") + "_contr.HEAD") if (params.get("contr") is not None) else None,
|
|
257
|
-
contr_brick_output=execution.output_file(params.get("contr") + "_contr.BRIK") if (params.get("contr") is not None) else None,
|
|
258
|
-
bucket_output=execution.output_file(params.get("bucket") + ".HEAD") if (params.get("bucket") is not None) else None,
|
|
259
|
-
bucket_brick_output=execution.output_file(params.get("bucket") + ".BRIK") if (params.get("bucket") is not None) else None,
|
|
235
|
+
ftr_output=execution.output_file(params.get("ftr", None) + ".HEAD") if (params.get("ftr") is not None) else None,
|
|
236
|
+
ftr_brick_output=execution.output_file(params.get("ftr", None) + ".BRIK") if (params.get("ftr") is not None) else None,
|
|
237
|
+
mean_output=execution.output_file(params.get("mean", None) + "_mean.HEAD") if (params.get("mean") is not None) else None,
|
|
238
|
+
mean_brick_output=execution.output_file(params.get("mean", None) + "_mean.BRIK") if (params.get("mean") is not None) else None,
|
|
239
|
+
diff_output=execution.output_file(params.get("diff", None) + "_diff.HEAD") if (params.get("diff") is not None) else None,
|
|
240
|
+
diff_brick_output=execution.output_file(params.get("diff", None) + "_diff.BRIK") if (params.get("diff") is not None) else None,
|
|
241
|
+
contr_output=execution.output_file(params.get("contr", None) + "_contr.HEAD") if (params.get("contr") is not None) else None,
|
|
242
|
+
contr_brick_output=execution.output_file(params.get("contr", None) + "_contr.BRIK") if (params.get("contr") is not None) else None,
|
|
243
|
+
bucket_output=execution.output_file(params.get("bucket", None) + ".HEAD") if (params.get("bucket") is not None) else None,
|
|
244
|
+
bucket_brick_output=execution.output_file(params.get("bucket", None) + ".BRIK") if (params.get("bucket") is not None) else None,
|
|
260
245
|
)
|
|
261
246
|
return ret
|
|
262
247
|
|
|
263
248
|
|
|
264
249
|
def v_3d_anova_execute(
|
|
265
250
|
params: V3dAnovaParameters,
|
|
266
|
-
|
|
251
|
+
runner: Runner | None = None,
|
|
267
252
|
) -> V3dAnovaOutputs:
|
|
268
253
|
"""
|
|
254
|
+
3dANOVA
|
|
255
|
+
|
|
269
256
|
Performs single-factor Analysis of Variance (ANOVA) on 3D datasets.
|
|
270
257
|
|
|
271
258
|
Author: AFNI Developers
|
|
@@ -274,10 +261,12 @@ def v_3d_anova_execute(
|
|
|
274
261
|
|
|
275
262
|
Args:
|
|
276
263
|
params: The parameters.
|
|
277
|
-
|
|
264
|
+
runner: Command runner.
|
|
278
265
|
Returns:
|
|
279
266
|
NamedTuple of outputs (described in `V3dAnovaOutputs`).
|
|
280
267
|
"""
|
|
268
|
+
runner = runner or get_global_runner()
|
|
269
|
+
execution = runner.start_execution(V_3D_ANOVA_METADATA)
|
|
281
270
|
params = execution.params(params)
|
|
282
271
|
cargs = v_3d_anova_cargs(params, execution)
|
|
283
272
|
ret = v_3d_anova_outputs(params, execution)
|
|
@@ -303,6 +292,8 @@ def v_3d_anova(
|
|
|
303
292
|
runner: Runner | None = None,
|
|
304
293
|
) -> V3dAnovaOutputs:
|
|
305
294
|
"""
|
|
295
|
+
3dANOVA
|
|
296
|
+
|
|
306
297
|
Performs single-factor Analysis of Variance (ANOVA) on 3D datasets.
|
|
307
298
|
|
|
308
299
|
Author: AFNI Developers
|
|
@@ -329,8 +320,6 @@ def v_3d_anova(
|
|
|
329
320
|
Returns:
|
|
330
321
|
NamedTuple of outputs (described in `V3dAnovaOutputs`).
|
|
331
322
|
"""
|
|
332
|
-
runner = runner or get_global_runner()
|
|
333
|
-
execution = runner.start_execution(V_3D_ANOVA_METADATA)
|
|
334
323
|
params = v_3d_anova_params(
|
|
335
324
|
levels=levels,
|
|
336
325
|
datasets=datasets,
|
|
@@ -347,13 +336,13 @@ def v_3d_anova(
|
|
|
347
336
|
assume_sph=assume_sph,
|
|
348
337
|
bucket=bucket,
|
|
349
338
|
)
|
|
350
|
-
return v_3d_anova_execute(params,
|
|
339
|
+
return v_3d_anova_execute(params, runner)
|
|
351
340
|
|
|
352
341
|
|
|
353
342
|
__all__ = [
|
|
354
343
|
"V3dAnovaOutputs",
|
|
355
|
-
"V3dAnovaParameters",
|
|
356
344
|
"V_3D_ANOVA_METADATA",
|
|
357
345
|
"v_3d_anova",
|
|
346
|
+
"v_3d_anova_execute",
|
|
358
347
|
"v_3d_anova_params",
|
|
359
348
|
]
|