flake

Author: mayofaulkner

.flake8

@@ -8,4 +8,4 @@ exclude =
     data_exploration_gui/
     launch_phy/
     histology/
-
+    qt_matplotlib.py

atlaselectrophysiology/ephys_gui_setup.py

@@ -16,7 +16,6 @@ def init_layout(self, main_window, offline=False):
         main_widget = QtWidgets.QWidget()
         self.setCentralWidget(main_widget)
 
-        #self.init_menubar()
         self.init_interaction_features()
         self.init_figures()
 
@@ -107,7 +106,7 @@ def init_menubar(self):
         for stim in stim_type:
             img = QtGui.QAction(stim, self, checkable=True, checked=False)
             img.triggered.connect(lambda checked, item=stim: self.plot_image(
-                                    self.img_stim_data[item]))
+                                  self.img_stim_data[item]))
             img_options.addAction(img)
             self.img_options_group.addAction(img)
 
@@ -138,14 +137,6 @@ def init_menubar(self):
         probe_rmsLFP = QtGui.QAction('rms LFP', self, checkable=True, checked=False)
         probe_rmsLFP.triggered.connect(lambda: self.plot_probe(self.probe_rms_LFPdata))
 
-
-
-        #probe_on_rfmap = QtGui.QAction('RF Map - On', self, checkable=True, checked=False)
-        #probe_on_rfmap.triggered.connect(lambda: self.plot_probe(self.probe_rfmap_on_data,
-        #                                                         bounds=self.rfmap_boundaries))
-        #probe_off_rfmap = QtGui.QAction('RF Map - Off', self, checkable=True, checked=False)
-        #probe_off_rfmap.triggered.connect(lambda: self.plot_probe(self.probe_rfmap_off_data,
-        #                                                          bounds=self.rfmap_boundaries))
         # Initialise with rms of AP probe plot
         self.probe_init = probe_rmsAP
 
@@ -178,7 +169,6 @@ def init_menubar(self):
             probe_options.addAction(probe)
             self.probe_options_group.addAction(probe)
 
-
         # SLICE PLOTS MENU BAR
         # Define all coronal slice plot options
         slice_hist_rd = QtGui.QAction('Histology Red', self, checkable=True, checked=True)
@@ -489,7 +479,6 @@ def init_interaction_features(self):
             ephys_qc_label = QtGui.QLabel("QC for ephys recording")
             self.ephys_qc = QtGui.QComboBox()
             self.ephys_qc.addItems(["Pass", "Warning", "Critical"])
-            #ephys_desc_label = QtGui.QLabel("Describe problem with recording")
 
             self.desc_buttons = QtWidgets.QButtonGroup()
             self.desc_group = QtWidgets.QGroupBox("Describe problem with recording")
@@ -780,4 +769,4 @@ def handleItemPressed(self, index):
         if item.checkState() == QtCore.Qt.Checked:
             item.setCheckState(QtCore.Qt.Unchecked)
         else:
-            item.setCheckState(QtCore.Qt.Checked)
+            item.setCheckState(QtCore.Qt.Checked)

atlaselectrophysiology/plot_data.py

@@ -468,8 +468,8 @@ def get_rfmap_data(self):
             img = dict()
             img['on'] = np.vstack(rfs_svd['on'])
             img['off'] = np.vstack(rfs_svd['off'])
-            yscale = ((np.max(self.chn_coords[:, 1]) - np.min(self.chn_coords[:, 1]))
-                      / img['on'].shape[0])
+            yscale = ((np.max(self.chn_coords[:, 1]) - np.min(
+                self.chn_coords[:, 1])) / img['on'].shape[0])
             xscale = 1
             levels = np.quantile(np.c_[img['on'], img['off']], [0, 1])
 
@@ -493,7 +493,7 @@ def get_passive_events(self):
         stim_keys = ['valveOn', 'toneOn', 'noiseOn', 'leftGabor', 'rightGabor']
         data_img = dict()
         if not self.passive_data_status and not self.gabor_data_status:
-            return  data_img
+            return data_img
         elif not self.passive_data_status and self.gabor_data_status:
             stim_types = ['leftGabor', 'rightGabor']
             stims = self.vis_stim
@@ -515,17 +515,17 @@ def get_passive_events(self):
                                                         base_stim=base_stim)
 
         for stim_type, z_score in stim_events.items():
-            xscale = (post_stim + pre_stim)/z_score.shape[1]
-            yscale = ((np.max(self.chn_coords[:, 1]) - np.min(self.chn_coords[:, 1]))
-                      / z_score.shape[0])
+            xscale = (post_stim + pre_stim) / z_score.shape[1]
+            yscale = ((np.max(self.chn_coords[:, 1]) - np.min(
+                self.chn_coords[:, 1])) / z_score.shape[0])
 
             levels = [-10, 10]
 
             stim_data = {stim_type: {
                 'img': z_score.T,
                 'scale': np.array([xscale, yscale]),
                 'levels': levels,
-                'offset': np.array([-1*pre_stim, 0]),
+                'offset': np.array([-1 * pre_stim, 0]),
                 'cmap': 'bwr',
                 'xrange': [-1 * pre_stim, post_stim],
                 'xaxis': 'Time from Stim Onset (s)',

setup.py

@@ -9,4 +9,4 @@
     packages=find_packages(),
     include_package_data=True,
     install_requires=require
-)
+)