fix import and flake

Author: mayofaulkner

atlaselectrophysiology/ephys_atlas_gui.py

@@ -327,7 +327,7 @@ def save_plots(self):
         # make folder to save plots to
         try:
             sess_info = (self.loaddata.subj + '_' + str(self.loaddata.date) + '_' +
-                        self.loaddata.probe_label + '_')
+                         self.loaddata.probe_label + '_')
             image_path_overview = self.alf_path.joinpath('GUI_plots')
             image_path = image_path_overview.joinpath(sess_info[:-1])
         except Exception:

atlaselectrophysiology/load_data.py

@@ -3,7 +3,7 @@
 import ibllib.pipes.histology as histology
 from ibllib.ephys.neuropixel import SITES_COORDINATES
 import ibllib.atlas as atlas
-# from ibllib.qc.alignment_qc import AlignmentQC
+from ibllib.qc.alignment_qc import AlignmentQC
 from oneibl.one import ONE
 from pathlib import Path
 import alf.io
@@ -15,7 +15,6 @@
 
 class LoadData:
     def __init__(self, one=None, brain_atlas=None, testing=False, probe_id=None):
-        from ibllib.qc.alignment_qc import AlignmentQC
         self.one = one or ONE(base_url=ONE_BASE_URL)
         self.brain_atlas = brain_atlas or atlas.AllenAtlas(25)
 

atlasview/atlasview.py

@@ -79,7 +79,8 @@ def add_scatter_feature(self, data):
 
     def add_image_layer(self, **kwargs):
         """
-        :param pg_kwargs: pyqtgraph setImage arguments: {'levels': None, 'lut': None, 'opacity': 1.0}
+        :param pg_kwargs: pyqtgraph setImage arguments: {'levels': None, 'lut': None,
+        'opacity': 1.0}
         :param slice_kwargs: ibllib.atlas.slice arguments: {'volume': 'image', 'mode': 'clip'}
         :return:
         """
@@ -151,7 +152,8 @@ def add_scatter(self):
 
     def add_image_layer(self, **kwargs):
         """
-        :param pg_kwargs: pyqtgraph setImage arguments: {'levels': None, 'lut': None, 'opacity': 1.0}
+        :param pg_kwargs: pyqtgraph setImage arguments: {'levels': None, 'lut': None,
+        'opacity': 1.0}
         :param slice_kwargs: ibllib.atlas.slice arguments: {'volume': 'image', 'mode': 'clip'}
         :return:
         """

atlasview/launcher.py

@@ -1,3 +1,5 @@
+from pathlib import Path
+import numpy as np
 from atlasview import atlasview  # mouais il va falloir changer ça
 av = atlasview.view()  # need to have an output argument here or the garbage collector will clean
 # it up and boom
@@ -12,8 +14,6 @@
     - should we add horizontal slices ?
 """
 
-from pathlib import Path
-import numpy as np
 # add brain regions feature:
 reg_values = np.load(Path(atlasview.__file__).parent.joinpath('region_values.npy'))
 av.add_regions_feature(reg_values, 'Blues', opacity=0.7)