corrected formating issue

Author: Alexander Schaefer

nipype/interfaces/cmtk/parcellation.py

@@ -184,31 +184,30 @@ def create_roi(subject_id, subjects_dir, fs_dir, parcellation_name):
         nb.save(img, out_roi)
 
     iflogger.info("[ DONE ]")
-        # dilate cortical regions
-        iflogger.info("Dilating cortical regions...")
-        dilatestart = time()
-        # loop throughout all the voxels belonging to the aseg GM volume
-        for j in range(xx.size):
-            if newrois[xx[j],yy[j],zz[j]] == 0:
-                local = extract(rois, shape, position=(xx[j],yy[j],zz[j]), fill=0)
-                mask = local.copy()
-                mask[np.nonzero(local>0)] = 1
-                thisdist = np.multiply(dist,mask)
-                thisdist[np.nonzero(thisdist==0)] = np.amax(thisdist)
-                value = np.int_(local[np.nonzero(thisdist==np.amin(thisdist))])
-                if value.size > 1:
-                    counts = np.bincount(value)
-                    value = np.argmax(counts)
-                newrois[xx[j],yy[j],zz[j]] = value
-        iflogger.info("Cortical ROIs dilation took %s seconds to process." % (time()-dilatestart))
-
-        # store volume eg in ROIv_scale33.nii.gz
-        out_roi = op.join(fs_dir, 'label', 'ROIv_%s.nii.gz' % parkey)
-        iflogger.info("Save output image to %s" % out_roi)
-        img = ni.Nifti1Image(newrois, aseg.get_affine(), hdr2)
-        ni.save(img, out_roi)
-
-     iflogger.info("[ DONE ]") 
+    # dilate cortical regions
+    iflogger.info("Dilating cortical regions...")
+    dilatestart = time()
+    # loop throughout all the voxels belonging to the aseg GM volume
+    for j in range(xx.size):
+        if newrois[xx[j],yy[j],zz[j]] == 0:
+            local = extract(rois, shape, position=(xx[j],yy[j],zz[j]), fill=0)
+            mask = local.copy()
+            mask[np.nonzero(local>0)] = 1
+            thisdist = np.multiply(dist,mask)
+            thisdist[np.nonzero(thisdist==0)] = np.amax(thisdist)
+            value = np.int_(local[np.nonzero(thisdist==np.amin(thisdist))])
+            if value.size > 1:
+                counts = np.bincount(value)
+                value = np.argmax(counts)
+            newrois[xx[j],yy[j],zz[j]] = value
+
+    # store volume eg in ROIv_scale33.nii.gz
+    out_roi = op.join(fs_dir, 'label', 'ROIv_%s.nii.gz' % parkey)
+    iflogger.info("Save output image to %s" % out_roi)
+    img = ni.Nifti1Image(newrois, aseg.get_affine(), hdr2)
+    ni.save(img, out_roi)
+
+    iflogger.info("[ DONE ]") 
 
 
 def create_wm_mask(subject_id, subjects_dir, fs_dir, parcellation_name):