Merge pull request #5 from bendhouseart/update_petsurfer

formatted with black

Author: mnoergaard

nipype/interfaces/freesurfer/model.py

@@ -421,7 +421,7 @@ class GLMFitInputSpec(FSTraitedSpec):
         desc="RefTac TimeSec tstar   : perform Logan kinetic modeling",
     )
     bp_clip_neg = traits.Bool(
-        argstr="--bp-clip-neg", 
+        argstr="--bp-clip-neg",
         desc="set negative BP voxels to zero",
     )
     bp_clip_max = traits.Float(

nipype/interfaces/freesurfer/petsurfer.py

@@ -460,7 +460,7 @@ class GTMPVCOutputSpec(TraitedSpec):
     )
     eres = File(
         desc="4D PET file of residual error after PVC (smoothed with PSF)",
-        )
+    )
     tissue_fraction = File(
         desc="4D PET file of tissue fraction before PVC",
     )
@@ -474,6 +474,7 @@ class GTMPVCOutputSpec(TraitedSpec):
         desc="Color table file for segmentation file",
     )
 
+
 class GTMPVC(FSCommand):
     """Perform Partial Volume Correction (PVC) to PET Data.
 
@@ -551,8 +552,12 @@ def _list_outputs(self):
         outputs["reg_pet2anat"] = os.path.join(pvcdir, "aux", "bbpet2anat.lta")
         outputs["reg_anat2pet"] = os.path.join(pvcdir, "aux", "anat2bbpet.lta")
         outputs["eres"] = os.path.join(pvcdir, "eres.nii.gz")
-        outputs["tissue_fraction"] = os.path.join(pvcdir, "aux", "tissue.fraction.nii.gz")
-        outputs["tissue_fraction_psf"] = os.path.join(pvcdir, "aux", "tissue.fraction.psf.nii.gz")
+        outputs["tissue_fraction"] = os.path.join(
+            pvcdir, "aux", "tissue.fraction.nii.gz"
+        )
+        outputs["tissue_fraction_psf"] = os.path.join(
+            pvcdir, "aux", "tissue.fraction.psf.nii.gz"
+        )
         outputs["seg"] = os.path.join(pvcdir, "aux", "seg.nii.gz")
         outputs["seg_ctab"] = os.path.join(pvcdir, "aux", "seg.ctab")