From 12d51860da291e96337191325785e37931c040aa Mon Sep 17 00:00:00 2001 From: salma1601 Date: Sat, 4 Jan 2020 21:14:24 +0100 Subject: [PATCH 1/2] remove use_default for rescale_intensities trait --- nipype/interfaces/ants/segmentation.py | 1 - 1 file changed, 1 deletion(-) diff --git a/nipype/interfaces/ants/segmentation.py b/nipype/interfaces/ants/segmentation.py index faba90dc82..b3255f344f 100644 --- a/nipype/interfaces/ants/segmentation.py +++ b/nipype/interfaces/ants/segmentation.py @@ -335,7 +335,6 @@ class N4BiasFieldCorrectionInputSpec(ANTSCommandInputSpec): ) rescale_intensities = traits.Bool( False, - usedefault=True, argstr="-r", min_ver="2.1.0", desc="""\ From 5851a631db829cf058bbeb4e7966dc193b1de441 Mon Sep 17 00:00:00 2001 From: salma1601 Date: Sat, 4 Jan 2020 21:36:14 +0100 Subject: [PATCH 2/2] remove use_default from rescale_intensities --- .../tests/test_auto_N4BiasFieldCorrection.py | 36 +++++++++---------- 1 file changed, 18 insertions(+), 18 deletions(-) diff --git a/nipype/interfaces/ants/tests/test_auto_N4BiasFieldCorrection.py b/nipype/interfaces/ants/tests/test_auto_N4BiasFieldCorrection.py index 2426660455..2091d2a34c 100644 --- a/nipype/interfaces/ants/tests/test_auto_N4BiasFieldCorrection.py +++ b/nipype/interfaces/ants/tests/test_auto_N4BiasFieldCorrection.py @@ -4,19 +4,19 @@ def test_N4BiasFieldCorrection_inputs(): input_map = dict( - args=dict(argstr="%s",), - bias_image=dict(extensions=None, hash_files=False,), - bspline_fitting_distance=dict(argstr="--bspline-fitting %s",), - bspline_order=dict(requires=["bspline_fitting_distance"],), - convergence_threshold=dict(requires=["n_iterations"],), - copy_header=dict(mandatory=True, usedefault=True,), - dimension=dict(argstr="-d %d", usedefault=True,), - environ=dict(nohash=True, usedefault=True,), - histogram_sharpening=dict(argstr="--histogram-sharpening [%g,%g,%d]",), - input_image=dict(argstr="--input-image %s", extensions=None, mandatory=True,), - mask_image=dict(argstr="--mask-image %s", extensions=None,), - n_iterations=dict(argstr="--convergence %s",), - num_threads=dict(nohash=True, usedefault=True,), + args=dict(argstr="%s"), + bias_image=dict(extensions=None, hash_files=False), + bspline_fitting_distance=dict(argstr="--bspline-fitting %s"), + bspline_order=dict(requires=["bspline_fitting_distance"]), + convergence_threshold=dict(requires=["n_iterations"]), + copy_header=dict(mandatory=True, usedefault=True), + dimension=dict(argstr="-d %d", usedefault=True), + environ=dict(nohash=True, usedefault=True), + histogram_sharpening=dict(argstr="--histogram-sharpening [%g,%g,%d]"), + input_image=dict(argstr="--input-image %s", extensions=None, mandatory=True), + mask_image=dict(argstr="--mask-image %s", extensions=None), + n_iterations=dict(argstr="--convergence %s"), + num_threads=dict(nohash=True, usedefault=True), output_image=dict( argstr="--output %s", hash_files=False, @@ -24,10 +24,10 @@ def test_N4BiasFieldCorrection_inputs(): name_source=["input_image"], name_template="%s_corrected", ), - rescale_intensities=dict(argstr="-r", min_ver="2.1.0", usedefault=True,), - save_bias=dict(mandatory=True, usedefault=True, xor=["bias_image"],), - shrink_factor=dict(argstr="--shrink-factor %d",), - weight_image=dict(argstr="--weight-image %s", extensions=None,), + rescale_intensities=dict(argstr="-r", min_ver="2.1.0"), + save_bias=dict(mandatory=True, usedefault=True, xor=["bias_image"]), + shrink_factor=dict(argstr="--shrink-factor %d"), + weight_image=dict(argstr="--weight-image %s", extensions=None), ) inputs = N4BiasFieldCorrection.input_spec() @@ -38,7 +38,7 @@ def test_N4BiasFieldCorrection_inputs(): def test_N4BiasFieldCorrection_outputs(): output_map = dict( - bias_image=dict(extensions=None,), output_image=dict(extensions=None,), + bias_image=dict(extensions=None), output_image=dict(extensions=None) ) outputs = N4BiasFieldCorrection.output_spec()