BF nibabel.freesurfer.read_label is not equivalent; revert

Author: effigies

surfer/io.py

@@ -100,6 +100,31 @@ def read_scalar_data(filepath):
     return scalar_data
 
 
+def read_label(filepath, read_scalars=False):
+    """Load in a Freesurfer .label file.
+
+    Parameters
+    ----------
+    filepath : str
+        Path to label file
+    read_scalars : bool
+        If true, read and return scalars associated with each vertex
+
+    Returns
+    -------
+    label_array : numpy array (ints)
+        Array with indices of vertices included in label
+    scalar_array : numpy array (floats)
+        If read_scalars is True, array of scalar data for each vertex
+
+    """
+    label_array = np.loadtxt(filepath, dtype=np.int, skiprows=2, usecols=[0])
+    if read_scalars:
+        scalar_array = np.loadtxt(filepath, skiprows=2, usecols=[-1])
+        return label_array, scalar_array
+    return label_array
+
+
 def read_stc(filepath):
     """Read an STC file from the MNE package
 

surfer/viz.py

@@ -704,10 +704,9 @@ def add_label(self, label, color="crimson", alpha=1,
                                      % filepath)
             # Load the label data and create binary overlay
             if scalar_thresh is None:
-                ids = nib.freesurfer.read_label(filepath)
+                ids = io.read_label(filepath)
             else:
-                ids, scalars = nib.freesurfer.read_label(filepath,
-                                                         read_scalars=True)
+                ids, scalars = io.read_label(filepath, read_scalars=True)
                 ids = ids[scalars >= scalar_thresh]
         else:
             # try to extract parameters from label instance