From 12d51860da291e96337191325785e37931c040aa Mon Sep 17 00:00:00 2001
From: salma1601 <salmabougacha@hotmail.com>
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 <salmabougacha@hotmail.com>
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()