make specs

Author: effigies

nipype/interfaces/fsl/tests/test_auto_BET.py

@@ -32,6 +32,7 @@ def test_BET_inputs():
         ),
         in_file=dict(
             argstr="%s",
+            copyfile=False,
             extensions=None,
             mandatory=True,
             position=0,

nipype/interfaces/mrtrix3/tests/test_auto_DWIPreproc.py

@@ -4,34 +4,90 @@
 
 def test_DWIPreproc_inputs():
     input_map = dict(
-        align_seepi=dict(argstr="-align_seepi"),
-        args=dict(argstr="%s"),
-        bval_scale=dict(argstr="-bvalue_scaling %s"),
-        eddy_options=dict(argstr='-eddy_options "%s"'),
-        environ=dict(nohash=True, usedefault=True),
-        export_grad_fsl=dict(argstr="-export_grad_fsl"),
-        export_grad_mrtrix=dict(argstr="-export_grad_mrtrix"),
-        grad_file=dict(argstr="-grad %s", extensions=None, xor=["grad_fsl"]),
-        grad_fsl=dict(argstr="-fslgrad %s %s", xor=["grad_file"]),
-        in_bval=dict(extensions=None),
-        in_bvec=dict(argstr="-fslgrad %s %s", extensions=None),
-        in_epi=dict(argstr="-se_epi %s", extensions=None),
-        in_file=dict(argstr="%s", extensions=None, mandatory=True, position=0),
-        nthreads=dict(argstr="-nthreads %d", nohash=True),
+        align_seepi=dict(
+            argstr="-align_seepi",
+        ),
+        args=dict(
+            argstr="%s",
+        ),
+        bval_scale=dict(
+            argstr="-bvalue_scaling %s",
+        ),
+        eddy_options=dict(
+            argstr='-eddy_options "%s"',
+        ),
+        environ=dict(
+            nohash=True,
+            usedefault=True,
+        ),
+        export_grad_fsl=dict(
+            argstr="-export_grad_fsl",
+        ),
+        export_grad_mrtrix=dict(
+            argstr="-export_grad_mrtrix",
+        ),
+        grad_file=dict(
+            argstr="-grad %s",
+            extensions=None,
+            xor=["grad_fsl"],
+        ),
+        grad_fsl=dict(
+            argstr="-fslgrad %s %s",
+            xor=["grad_file"],
+        ),
+        in_bval=dict(
+            extensions=None,
+        ),
+        in_bvec=dict(
+            argstr="-fslgrad %s %s",
+            extensions=None,
+        ),
+        in_epi=dict(
+            argstr="-se_epi %s",
+            extensions=None,
+        ),
+        in_file=dict(
+            argstr="%s",
+            extensions=None,
+            mandatory=True,
+            position=0,
+        ),
+        nthreads=dict(
+            argstr="-nthreads %d",
+            nohash=True,
+        ),
         out_file=dict(
-            argstr="%s", extensions=None, mandatory=True, position=1, usedefault=True
+            argstr="%s",
+            extensions=None,
+            mandatory=True,
+            position=1,
+            usedefault=True,
+        ),
+        out_grad_fsl=dict(
+            argstr="%s, %s",
+            requires=["export_grad_fsl"],
         ),
-        out_grad_fsl=dict(argstr="%s, %s", requires=["export_grad_fsl"]),
         out_grad_mrtrix=dict(
             argstr="%s",
             extensions=None,
             requires=["export_grad_mrtrix"],
             usedefault=True,
         ),
-        pe_dir=dict(argstr="-pe_dir %s", mandatory=True),
-        ro_time=dict(argstr="-readout_time %f"),
-        rpe_options=dict(argstr="-rpe_%s", mandatory=True, position=2),
-        topup_options=dict(argstr='-topup_options "%s"'),
+        pe_dir=dict(
+            argstr="-pe_dir %s",
+            mandatory=True,
+        ),
+        ro_time=dict(
+            argstr="-readout_time %f",
+        ),
+        rpe_options=dict(
+            argstr="-rpe_%s",
+            mandatory=True,
+            position=2,
+        ),
+        topup_options=dict(
+            argstr='-topup_options "%s"',
+        ),
     )
     inputs = DWIPreproc.input_spec()
 
@@ -42,10 +98,25 @@ def test_DWIPreproc_inputs():
 
 def test_DWIPreproc_outputs():
     output_map = dict(
-        out_file=dict(argstr="%s", extensions=None),
-        out_fsl_bval=dict(argstr="%s", extensions=None, usedefault=True),
-        out_fsl_bvec=dict(argstr="%s", extensions=None, usedefault=True),
-        out_grad_mrtrix=dict(argstr="%s", extensions=None, usedefault=True),
+        out_file=dict(
+            argstr="%s",
+            extensions=None,
+        ),
+        out_fsl_bval=dict(
+            argstr="%s",
+            extensions=None,
+            usedefault=True,
+        ),
+        out_fsl_bvec=dict(
+            argstr="%s",
+            extensions=None,
+            usedefault=True,
+        ),
+        out_grad_mrtrix=dict(
+            argstr="%s",
+            extensions=None,
+            usedefault=True,
+        ),
     )
     outputs = DWIPreproc.output_spec()