From 45423eb6b0cccb3f4c6d9453e15972577e792aa4 Mon Sep 17 00:00:00 2001 From: EmmaRenauld Date: Fri, 15 Dec 2023 10:58:34 -0500 Subject: [PATCH] scil_btensor_metrics: add todos --- scripts/scil_btensor_metrics.py | 12 ++++-------- 1 file changed, 4 insertions(+), 8 deletions(-) diff --git a/scripts/scil_btensor_metrics.py b/scripts/scil_btensor_metrics.py index 23b301d1f6..27fb713d1e 100755 --- a/scripts/scil_btensor_metrics.py +++ b/scripts/scil_btensor_metrics.py @@ -40,8 +40,8 @@ from scilpy.io.btensor import generate_btensor_input from scilpy.io.image import get_data_as_mask from scilpy.io.utils import (add_overwrite_arg, assert_inputs_exist, - assert_outputs_exist, add_force_b0_arg, - add_processes_arg, add_verbose_arg) + assert_outputs_exist, add_processes_arg, + add_verbose_arg) from scilpy.reconst.divide import fit_gamma, gamma_fit2metrics @@ -100,7 +100,6 @@ def _build_arg_parser(): '--fa', help='Path to a FA map. Needed for calculating the OP.') - add_force_b0_arg(p) add_processes_arg(p) add_verbose_arg(p) add_overwrite_arg(p) @@ -175,16 +174,13 @@ def main(): affine = extract_affine(args.in_dwis) - tol = args.tolerance - force_b0_thr = args.force_b0_threshold - + # toDo. Add a way to include a different b0_threshold than the tolerance. data, gtab_infos = generate_btensor_input(args.in_dwis, args.in_bvals, args.in_bvecs, args.in_bdeltas, - force_b0_thr, do_pa_signals=True, - tol=tol) + tol=args.tolerance) gtab_infos[0] *= 1e6 # getting bvalues to SI units